Open Tree of Life
Bibliographic references for the synthetic tree
The following studies (listed alphabetically by first author) have contributed to the current synthetic tree.
A. Bucklin, B. Frost, J. Bradford-Grieve, L. Allen, N. Copley, 2003, 'Molecular systematic and phylogenetic assessment of 34 calanoid copepod species of the Calanidae and Clausocalanidae', Marine Biology, vol. 142, no. 2, pp. 333-343
https://doi.org/10.1007/s00227-002-0943-1
Quintero, Esther, Camila C. Ribas, Joel Cracraft. 2012. The Andean Hapalopsittaca parrots (Psittacidae, Aves): an example of montane-tropical lowland vicariance. Zoologica Scripta 42 (1): 28-43.
https://doi.org/10.1111/j.1463-6409.2012.00567.x
1987 Schaefer, S.A. Osteology of Hypostomus plecostomus (Linnaeus), with a phylogenetic analysis of the loricariid subfamilies (Pisces: Siluroidei). Contributions in Science, Natural History Museum of Los Angeles County, no. 394, 31 p
http://www.nhm.org/site/sites/default/files/pdf/contrib_science/CS394.pdf
A cryptic new species of bulbul from Borneo
https://doi.org/10.25226/bboc.v139i1.2019.a3
A striking new species of leaf warbler from the Lesser Sundas as uncovered through morphology and genomics
https://doi.org/10.1038/s41598-018-34101-7
A. A. Crowl, N. W. Miles, C. J. Visger, K. Hansen, T. Ayers, R. Haberle, N. Cellinese, 2016, 'A global perspective on Campanulaceae: Biogeographic, genomic, and floral evolution', American Journal of Botany
https://doi.org/10.3732/ajb.1500450
A. C. Schneider, W. A. Freyman, C. M. Guilliams, Y. P. Springer, B. G. Baldwin, 2016, 'Pleistocene radiation of the serpentine-adapted genus Hesperolinon and other divergence times in Linaceae (Malpighiales)', American Journal of Botany, vol. 103, no. 2, pp. 221-232
https://doi.org/10.3732/ajb.1500379
A. Delgado-Salinas, M. Thulin, R. Pasquet, N. Weeden, M. Lavin. 2011. Vigna (Leguminosae) sensu lato: The names and identities of the American segregate genera. American Journal of Botany 98(10):1694-1715.
https://doi.org/10.3732/ajb.1100069
A. E. Syme, T. H. Oakley, 2011, 'Dispersal between Shallow and Abyssal Seas and Evolutionary Loss and Regain of Compound Eyes in Cylindroleberidid Ostracods: Conflicting Conclusions from Different Comparative Methods', Systematic Biology, vol. 61, no. 2, pp. 314-336
https://doi.org/10.1093/sysbio/syr085
A. Leuchtmann, C. W. Bacon, C. L. Schardl, J. F. White, M. Tadych, 2014, 'Nomenclatural realignment of Neotyphodium species with genus Epichloe', Mycologia, vol. 106, no. 2, pp. 202-215
https://doi.org/10.3852/106.2.202
A. Manegold, 2008, 'Composition and phylogenetic affinities of vangas (Vangidae, Oscines, Passeriformes) based on morphological characters', Journal of Zoological Systematics and Evolutionary Research, vol. 46, no. 3, pp. 267-277
https://doi.org/10.1111/j.1439-0469.2008.00458.x
A. da Marcela Vasco-Palacios, C. Lopez-Quintero, A. E. Franco-Molano, T. Boekhout, 2014, 'Austroboletus amazonicus sp. nov. and Fistulinella campinaranae var. scrobiculata, two commonly occurring boletes from a forest dominated by Pseudomonotes tropenbosii (Dipterocarpaceae) in Colombian Amazonia', Mycologia, vol. 106, no. 5, pp. 1004-1014
https://doi.org/10.3852/13-324
ACOSTA, R., & MORRONE, J. J. (2013). Phylogenetics of the tribe Phalacropsyllini (Siphonaptera: Ctenophthalmidae: Neopsyllinae) based on molecular and morphological evidence. Zootaxa, 3630(2). https://doi.org/10.11646/zootaxa.3630.2.8
https://doi.org/10.11646/zootaxa.3630.2.8
ADUSE‐POKU, K., LEES, D. C., BRATTSTRÖM, O., KODANDARAMAIAH, U., COLLINS, S. C., WAHLBERG, N., & BRAKEFIELD, P. M. (2016). Molecular phylogeny and generic‐level taxonomy of the widespread palaeotropical ‘Heteropsis clade’ (Nymphalidae: Satyrinae: Mycalesina). Systematic Entomology, 41(4), 717–731. Portico. https://doi.org/10.1111/syen.12183
https://doi.org/10.1111/syen.12183
ALAN H. BORNBUSCH, 1995, 'Phylogenetic relationships within the Eurasian catfish family Siluridae (Pisces: Siluriformes), with comments on generic validities and biogeography', Zoological Journal of the Linnean Society, vol. 115, no. 1, pp. 1-46
https://doi.org/10.1111/j.1096-3642.1995.tb02322.x
ALICE CIBOIS, JEAN-CLAUDE THIBAULT, ERIC PASQUET, 2008, 'Systematics of the extinct reed warblers Acrocephalus of the Society Islands of eastern Polynesia', Ibis, vol. 150, no. 2, pp. 365-376
https://doi.org/10.1111/j.1474-919x.2008.00800.x
ANG, Y., PUNIAMOORTHY, N., & MEIER, R. (2008). Secondarily reduced foreleg armature in Perochaeta dikowi sp.n. (Diptera: Cyclorrhapha: Sepsidae) due to a novel mounting technique. Systematic Entomology, 33(3), 552–559. Portico. https://doi.org/10.1111/j.1365-3113.2008.00422.x
https://doi.org/10.1111/j.1365-3113.2008.00422.x
ARCHANGELSKY, M. (2008). Phylogeny of Berosini (Coleoptera: Hydrophilidae, Hydrophilinae) based on larval and adult characters, and evolutionary scenarios related to habitat shift in larvae. Systematic Entomology, 33(4), 635–650. Portico. https://doi.org/10.1111/j.1365-3113.2008.00425.x
https://doi.org/10.1111/j.1365-3113.2008.00425.x
ARNEDO, M. A., OROMÍ, P., MARTÍN DE ABREU, S., & RIBERA, C. (2007). Biogeographical and evolutionary patterns in the Macaronesian shield‐backed katydid genus Calliphona Krauss, 1892 (Orthoptera: Tettigoniidae) and allies as inferred from phylogenetic analyses of multiple mitochondrial genes. Systematic Entomology, 33(1), 145–158. Portico. https://doi.org/10.1111/j.1365-3113.2007.00393.x
https://doi.org/10.1111/j.1365-3113.2007.00393.x
Abalde S., Tenorio M.J., Afonso C.M., Uribe J.E., Echeverry A.M., & Zardoya R. 2017. Phylogenetic relationships of cone snails endemic to Cabo Verde based on mitochondrial genomes. BMC Evolutionary Biology, 17: 231.
https://doi.org/10.1186/s128620171069x
Abasova L., Aghayeva D., & Takamatsu S. 2018. Notes on powdery mildews of the genus Erysiphe from Azerbaijan. Current Research in Environmental & Applied Mycology, 8(1): 50-53 .
https://doi.org/10.5943/cream/8/1/3
Achimon F., Johnson L., Cocucci A., Sersic A., & Baranzelli M.C. 2018. Species tree phylogeny, character evolution and biogeography of the Patagonian genus Anarthrophyllum Benth. (Fabaceae). Organisms Diversity & Evolution, .
https://doi.org/10.1007/s13127-017-0355-1
Adam L. Bazinet, Michael P. Cummings, Kim T. Mitter, Charles W. Mitter, 2013, 'Can RNA-Seq Resolve the Rapid Radiation of Advanced Moths and Butterflies (Hexapoda: Lepidoptera: Apoditrysia)? An Exploratory Study', PLoS ONE, vol. 8, no. 12, p. e82615
https://doi.org/10.1371/journal.pone.0082615
Adamcik S., Slovak M., Eberhardt U., Ronikier A., Jairus T., Hampe F., & Verbeken A. 2016. Molecular inference, multivariate morphometrics and ecological assessment are applied in concert to delimit species in the Russula clavipes complex. Mycologia, 108(4): 716-730.
https://doi.org/10.3852/15-194
Adams N.F., Collinson M.E., Smith S.Y., Bamford M.K., Forest F., Malakasi P., Marone F., & Sykes D. 2016. X-rays and virtual taphonomy reveal the first fossil record of Cissus (Vitaceae) in Africa: phylogenetic, biogeographic and paleoenvironmental implications. American Journal of Botany, .
https://doi.org/10.3732/ajb.1600177
Adeljean L.F.C. Ho, Christin L. Pruett, Junda Lin, 2016, 'Phylogeny and biogeography of Poecilia (Cyprinodontiformes: Poeciliinae) across Central and South America based on mitochondrial and nuclear DNA markers', Molecular Phylogenetics and Evolution, vol. 101, pp. 32-45
https://doi.org/10.1016/j.ympev.2016.04.032
Adriana E. Marvaldi, 2005, 'Larval morphology and biology of oxycorynine weevils and the higher phylogeny of Belidae (Coleoptera, Curculionoidea)', Zoologica Scripta, vol. 34, no. 1, pp. 37-48
https://doi.org/10.1111/j.1463-6409.2005.00169.x
Agarwal I., Ceríaco L.M., Metallinou M., Jackman T.R., & Bauer A. 2021. How the African house gecko (Hemidactylus mabouia) conquered the world. Royal Society Open Science, 8(8): 210749.
https://doi.org/10.1098/rsos.210749
Agnarsson, I., Zambrana-torrelio C.M., Flores saldaña N.P., & May-collado L.M. 2011. A time-calibrated species-level phylogeny of bats (Chiroptera, Mammalia). PLoS Currents: Tree of Life, Version 44.
https://doi.org/10.1371/currents.RRN1212
Agorreta, Ainhoa, Diego San Mauro, Ulrich Schliewen, James L. Van Tassell, Marcelo Kovačić, Rafael Zardoya, Lukas Rüber. 2013. Molecular phylogenetics of Gobioidei and phylogenetic placement of European gobies. Molecular Phylogenetics and Evolution 69 (3): 619-633.
https://doi.org/10.1016/j.ympev.2013.07.017
Ahmed, M., Roberts, N. G., Adediran, F., Smythe, A. B., Kocot, K. M., & Holovachov, O. (2022). Phylogenomic Analysis of the Phylum Nematoda: Conflicts and Congruences With Morphology, 18S rRNA, and Mitogenomes. Frontiers in Ecology and Evolution, 9. https://doi.org/10.3389/fevo.2021.769565
https://doi.org/10.3389/fevo.2021.769565
Ahyong, S., Lai J., Sharkey D., Colgan D., & Ng P. 2007. Phylogenetics of the brachyuran crabs (Crustacea: Decapoda): the status of Podotremata based on small subunit nuclear ribosomal RNA. Molecular Phylogenetics and Evolution 45 (2): 576-586.
https://doi.org/10.1016/j.ympev.2007.03.022
Ainscough, B. J., Breinholt, J. W., Robison, H. W., & Crandall, K. A. (2013). Molecular phylogenetics of the burrowing crayfish genus Fallicambarus (Decapoda: Cambaridae). Zoologica Scripta.
https://doi.org/10.1111/zsc.12006
Akito Y. Kawahara, Jesse W. Breinholt, Marianne Espeland, Caroline Storer, David Plotkin, Kelly M. Dexter, Emmanuel F.A. Toussaint, Ryan A. St Laurent, Gunnar Brehm, Sergio Vargas, Dimitri Forero, Naomi E. Pierce, David J. Lohman, 2018, 'Phylogenetics of moth-like butterflies (Papilionoidea: Hedylidae) based on a new 13-locus target capture probe set', Molecular Phylogenetics and Evolution, vol. 127, pp. 600-605
https://doi.org/10.1016/j.ympev.2018.06.002
Alencar, Laura R.V., Tiago B. Quental, Felipe G. Grazziotin, Michael L. Alfaro, Marcio Martins, Mericien Venzon, Hussam Zaher. 2016. Diversification in vipers: Phylogenetic relationships, time of divergence and shifts in speciation rates. Molecular Phylogenetics and Evolution 105: 50-62
https://doi.org/10.1016/j.ympev.2016.07.029
Alex Dornburg, Jon Moore, Jeremy M. Beaulieu, Ron I. Eytan, Thomas J. Near, 2014, 'The impact of shifts in marine biodiversity hotspots on patterns of range evolution: Evidence from the Holocentridae (squirrelfishes and soldierfishes)', Evolution, vol. 69, no. 1, pp. 146-161
https://doi.org/10.1111/evo.12562
Alexandrou, M. A., Swartz, B. A., Matzke, N. J., & Oakley, T. H. (2013). Genome duplication and multiple evolutionary origins of complex migratory behavior in Salmonidae. Molecular Phylogenetics and Evolution, 69(3), 514–523. doi:10.1016/j.ympev.2013.07.026
https://doi.org/10.1016/j.ympev.2013.07.026
Aliabadian, Mansour, Mohammad Kaboli, Roger Prodon, Vincent Nijman, Miguel Vences. 2007. Phylogeny of Palaearctic wheatears (genus Oenanthe)—Congruence between morphometric and molecular data. Molecular Phylogenetics and Evolution 42 (3): 665-675
https://doi.org/10.1016/j.ympev.2006.08.018
Allen G. Collins, Bastian Bentlage, Alberto Lindner, Dhugal Lindsay, Steven H.D. Haddock, Gerhard Jarms, Jon L. Norenburg, Thomas Jankowski, Paulyn Cartwright, 2008, 'Phylogenetics of Trachylina (Cnidaria: Hydrozoa) with new insights on the evolution of some problematical taxa', Journal of the Marine Biological Association of the United Kingdom, vol. 88, no. 08, p. 1673
https://doi.org/10.1017/s0025315408001732
Allen G., Soltis D., & Soltis P. 2003. Phylogeny and biogeography of Erythronium (Liliaceae) inferred from chloroplast matK and nuclear rDNA ITS sequences. Systematic Botany, 28(3): 512-523.
https://doi.org/10.1043/02-18.1
Almeida, E. A. B., Bossert, S., Danforth, B. N., Porto, D. S., Freitas, F. V., Davis, C. C., Murray, E. A., Blaimer, B. B., Spasojevic, T., Ströher, P. R., Orr, M. C., Packer, L., Brady, S. G., Kuhlmann, M., Branstetter, M. G., & Pie, M. R. (2023). The evolutionary history of bees in time and space. Current Biology, 33(16), 3409-3422.e6. https://doi.org/10.1016/j.cub.2023.07.005
https://doi.org/10.1016/j.cub.2023.07.005
Almeida, Francisca C., Norberto P. Giannini, Nancy B. Simmons, Kristofer M. Helgen. 2014. Each flying fox on its own branch: a phylogenetic tree for Pteropus and related genera (Chiroptera: Pteropodidae). Molecular Phylogenetics and Evolution 77: 83-95.
https://doi.org/10.1016/j.ympev.2014.03.009
Alstrom, P., D. M. Hooper, Y. Liu, U. Olsson, D. Mohan, M. Gelang, H. Le Manh, J. Zhao, F. Lei, T. D. Price. 2014. Discovery of a relict lineage and monotypic family of passerine birds. Biology Letters 10 (3): 20131067-20131067.
https://doi.org/10.1098/rsbl.2013.1067
Alström, P., Cibois, A., Irestedt, M., Zuccon, D., Gelang, M., Fjeldså, J., Andersen, M. J., Moyle, R. G., Pasquet, E., & Olsson, U. (2018). Comprehensive molecular phylogeny of the grassbirds and allies (Locustellidae) reveals extensive non-monophyly of traditional genera, and a proposal for a new classification. Molecular Phylogenetics and Evolution, 127, 367–375. https://doi.org/10.1016/j.ympev.2018.03.029
https://doi.org/10.1016/j.ympev.2018.03.029
Alström, P., Höhna, S., Gelang, M., Ericson, P. G., & Olsson, U. (2011). Non-monophyly and intricate morphological evolution within the avian family Cettiidae revealed by multilocus analysis of a taxonomically densely sampled dataset. BMC Evolutionary Biology, 11(1), 352. https://doi.org/10.1186/1471-2148-11-352
https://doi.org/10.1186/1471-2148-11-352
Alström, P., Jønsson, K. A., Fjeldså, J., Ödeen, A., Ericson, P. G. P., & Irestedt, M. (2015). Dramatic niche shifts and morphological change in two insular bird species. Royal Society Open Science, 2(3), 140364. https://doi.org/10.1098/rsos.140364
https://doi.org/10.1098/rsos.140364
Alström, P., Mohammadi, Z., Enbody, E., Irestedt, M., Engelbrecht, D., Crochet, P.-A., Guillaumet, A., Rancilhac, L., Tieleman, B. I., Olsson, U., Donald, P. F., & Stervander, M. (2023). Systematics of the avian family Alaudidae using multilocus and genomic data. Avian Research, 100095. https://doi.org/10.1016/j.avrs.2023.100095
https://doi.org/10.1016/j.avrs.2023.100095
Alström, P., Rasmussen, P. C., Sangster, G., Dalvi, S., Round, P. D., Zhang, R., Yao, C., Irestedt, M., Le Manh, H., Lei, F., & Olsson, U. (2019). Multiple species within the Striated Prinia
Prinia crinigera–
Brown Prinia
P. polychroa
complex revealed through an integrative taxonomic approach. Ibis, 162(3), 936–967. Portico. https://doi.org/10.1111/ibi.12759
https://doi.org/10.1111/ibi.12759
Alström, P., Rasmussen, P. C., Xia, C., Gelang, M., Liu, Y., Chen, G., Zhao, M., Hao, Y., Zhao, C., Zhao, J., Yao, C., Eaton, J. A., Hutchinson, R., Lei, F., & Olsson, U. (2018). Taxonomy of the White-browed Shortwing (Brachypteryx montana) complex on mainland Asia and Taiwan: an integrative approach supports recognition of three instead of one species. Avian Research, 9(1). https://doi.org/10.1186/s40657-018-0125-6
https://doi.org/10.1186/s40657-018-0125-6
Alström, P., Rasmussen, P. C., Xia, C., Zhang, L., Liu, C., Magnusson, J., Shafaeipour, A., & Olsson, U. (2021). Morphology, vocalizations, and mitochondrial DNA suggest that the Graceful Prinia is two species. Ornithology, 138(2). https://doi.org/10.1093/ornithology/ukab014
https://doi.org/10.1093/ornithology/ukab014
Alström, P., Rasmussen, P. C., Zhao, C., Xu, J., Dalvi, S., Cai, T., Guan, Y., Zhang, R., Kalyakin, M. V., Lei, F., & Olsson, U. (2016). Integrative taxonomy of the Plain-backed Thrush (Zoothera mollissima) complex (Aves, Turdidae) reveals cryptic species, including a new species. Avian Research, 7(1). https://doi.org/10.1186/s40657-016-0037-2
https://doi.org/10.1186/s40657-016-0037-2
Alström, Per, Keith N. Barnes, Urban Olsson, F. Keith Barker, Paulette Bloomer, Aleem Ahmed Khan, Masood Ahmed Qureshi, Alban Guillaumet, Pierre-André Crochet, Peter G. Ryan. 2013. Multilocus phylogeny of the avian family Alaudidae (larks) reveals complex morphological evolution, non-monophyletic genera and hidden species diversity. Molecular Phylogenetics and Evolution 69 (3): 1043-1056.
https://doi.org/10.1016/j.ympev.2013.06.005
Amanda F. Cunha, Allen G. Collins, Antonio C. Marques, 2017, 'Phylogenetic relationships of Proboscoida Broch, 1910 (Cnidaria, Hydrozoa): Are traditional morphological diagnostic characters relevant for the delimitation of lineages at the species, genus, and family levels?', Molecular Phylogenetics and Evolution, vol. 106, pp. 118-135
https://doi.org/10.1016/j.ympev.2016.09.012
Amy E. Zanne, David C. Tank, William K. Cornwell, Jonathan M. Eastman, Stephen A. Smith, Richard G. FitzJohn, Daniel J. McGlinn, Brian C. O’Meara, Angela T. Moles, Peter B. Reich, Dana L. Royer, Douglas E. Soltis, Peter F. Stevens, Mark Westoby, Ian J. Wright, Lonnie Aarssen, Robert I. Bertin, Andre Calaminus, Rafaël Govaerts, Frank Hemmings, Michelle R. Leishman, Jacek Oleksyn, Pamela S. Soltis, Nathan G. Swenson, Laura Warman, Jeremy M. Beaulieu, 2013, 'Three keys to the radiation of angiosperms into freezing environments', Nature, vol. 506, no. 7486, pp. 89-92
https://doi.org/10.1038/nature12872
Andersen, M. J., McCullough, J. M., Friedman, N. R., Peterson, A. T., Moyle, R. G., Joseph, L., & Nyári, Á. S. (2019). Ultraconserved elements resolve genus-level relationships in a major Australasian bird radiation (Aves: Meliphagidae). Emu - Austral Ornithology, 119(3), 218–232. https://doi.org/10.1080/01584197.2019.1595662
https://doi.org/10.1080/01584197.2019.1595662
Andersen, Michael J., Jenna M. McCullough, William M. Mauck, Brian Tilston Smith, Robert G. Moyle. 2017. A phylogeny of kingfishers reveals an Indomalayan origin and elevated rates of diversification on oceanic islands. Journal of Biogeography
https://doi.org/10.1111/jbi.13139
Anderson, A. M., Stur, E., & Ekrem, T. (2013). Molecular and morphological methods reveal cryptic diversity and three new species of NearcticMicropsectra(Diptera:Chironomidae). Freshwater Science, 32(3), 892–921. https://doi.org/10.1899/12-026.1
https://doi.org/10.1899/12-026.1
Andrea M. Quattrini, Samuel E. Georgian, Luke Byrnes, Alex Stevens, Rosalia Falco, Erik E. Cordes, 2013, 'Niche divergence by deep-sea octocorals in the genusCallogorgiaacross the continental slope of the Gulf of Mexico', Molecular Ecology, vol. 22, no. 15, pp. 4123-4140
https://doi.org/10.1111/mec.12370
Andrea R. Garfinkel, Marilinda Lorenzini, Giacomo Zapparoli, Gary A. Chastagner, 2017, 'Botrytis euroamericana, a new species from peony and grape in North America and Europe', Mycologia, vol. 109, no. 3, pp. 495-507
https://doi-org.www2.lib.ku.edu/10.1080/00275514.2017.1354169
Andres B., & Ji Q. 2008. A new pterosaur from the Liaoning Province of China, the phylogeny of the Pterodactyloidea, and convergence in their cervical vertebrae. Palaeontology, 51(2): 453-469.
https://doi.org/10.1111/j.1475-4983.2008.00761.x
Andres B.B., Clark J.M., & Xu X. 2012. A new rhamphorhynchid pterosaur from the Upper Jurassic of Xinjiang, China, and the phylogenetic relationships of basal pterosaurs. Journal of Vertebrate Paleontology, 30(1): 163-187.
https://doi.org/10.1080/02724630903409220
Andrew L. Hipp, Paul S. Manos, Antonio González-Rodríguez, Marlene Hahn, Matthew Kaproth, John D. McVay, Susana Valencia Avalos, Jeannine Cavender-Bares, 2017, 'Sympatric parallel diversification of major oak clades in the Americas and the origins of Mexican species diversity', New Phytologist, vol. 217, no. 1, pp. 439-452
https://doi.org/10.1111/nph.14773
Anil raj K., Deepna latha K., Rajan I., & Manimohan P. 2016. Rhodophana squamulosa a new species from India. Mycoscience, 57 (2): 90-95.
https://doi.org/10.1016/j.myc.2015.10.001
Anker, A., & Baeza J. 2012. Molecular and morphological phylogeny of hooded shrimps, genera Betaeus and Betaeopsis (Decapoda, Alpheidae): testing the Center of Origin biogeographic model and evolution of life history traits. Molecular Phylogenetics and Evolution 64 (3): 401-415.
https://doi.org/10.1016/j.ympev.2012.04.015
Anna V. Williams, Joseph T. Miller, Ian Small, Paul G. Nevill, Laura M. Boykin, 2016, 'Integration of complete chloroplast genome sequences with small amplicon datasets improves phylogenetic resolution in Acacia', Molecular Phylogenetics and Evolution, vol. 96, pp. 1-8
https://doi.org/10.1016/j.ympev.2015.11.021
Annie R Lindgren, Molly S Pankey, Frederick G Hochberg, Todd H Oakley, 2012, 'A multi-gene phylogeny of Cephalopoda supports convergent morphological evolution in association with multiple habitat shifts in the marine environment', BMC Evolutionary Biology, vol. 12, no. 1, p. 129
https://doi.org/10.1186/1471-2148-12-129
Anthony J. Geneva, Jared Hilton, Sabina Noll, Richard E. Glor, 2015, 'Multilocus phylogenetic analyses of Hispaniolan and Bahamian trunk anoles (distichus species group)', Molecular Phylogenetics and Evolution, vol. 87, pp. 105-117
https://doi.org/10.1016/j.ympev.2015.02.011
Antoine Simon, Bernard Goffinet, Nicolas Magain, Emmanuël Sérusiaux, 2018, 'High diversity, high insular endemism and recent origin in the lichen genus Sticta (lichenized Ascomycota, Peltigerales) in Madagascar and the Mascarenes', Molecular Phylogenetics and Evolution, vol. 122, pp. 15-28
https://doi.org/10.1016/j.ympev.2018.01.012
Antonio F. Nogueira Júnior, Ivan H. Fischer, Carlos A. D. Bragança, Nelson S. Massola Júnior, Lilian Amorim, 2015, 'Identification of Botryosphaeriaceae species that cause stylar-end rot of guavas and characterisation of the disease monocycle', European Journal of Plant Pathology, vol. 144, no. 2, pp. 271-287
https://doi.org/10.1007/s10658-015-0765-x
Aoki T., & O'donnell K. 1999. Morphological and molecular characterization of Fusarium pseudograminearum sp. nov., formerly recognized as the group 1 population of F. graminearum. Mycologia, 1999(4): 597-609.
https://doi.org/10.2307/3761245
Aoki T., O'donnell K., Homma Y., & Lattanzi A. 2003. Sudden death syndrome of soybean is caused by two morphologically and phylogenetically distinct species within the Fusarium solani species complex, F. virguliforme in North America and F. tucumaniae in South America. Mycologia, 95(4): 660-684.
https://doi.org/10.2307/3761942
Aoki T., Scandiani M.M., & O'donnell K. 2011. Phenotypic, molecular phylogenetic and pathogenetic characterization of Fusarium crassistipitatum sp. nov., a novel soybean sudden death syndrome pathogen from Argentina and Brazil. Mycoscience, 53(3), 167-186
https://doi.org/10.1007/s10267-011-0150-3
Aoki T., Suga H., Hyakumachi M., Scandiani M.M., & O'donnell K. 2012. Fusarium azukicola sp. nov., a novel exotic azuki bean root-rot pathogen in Hokkaido, Japan. Mycologia, 104(5): 1068-1084.
https://doi.org/10.3852/11-303
Arbabi, Tayebeh, Javier Gonzalez, Michael Wink. 2014. A re-evaluation of phylogenetic relationships within reed warblers (Aves: Acrocephalidae) based on eight molecular loci and ISSR profiles. Molecular Phylogenetics and Evolution 78: 304-313.
https://doi.org/10.1016/j.ympev.2014.05.026
Arcila, Dahiana, Guillermo Ortí, Richard Vari, Jonathan W. Armbruster, Melanie L. J. Stiassny, Kyung D. Ko, Mark H. Sabaj, John Lundberg, Liam J. Revell, Ricardo Betancur-R., 2017, 'Genome-wide interrogation advances resolution of recalcitrant groups in the tree of life', Nature Ecology & Evolution, vol. 1, p. 0020
https://doi.org/10.1038/s41559-016-0020
Armbruster J.W. 2004. Phylogenetic relationships of the suckermouth armoured catfishes (Loricariidae) with emphasis on the Hypostominae and the Ancistrinae. Zoological Journal of the Linnean Society, 141(1): 1-80.
https://doi.org/10.1111/j.1096-3642.2004.00109.x
Armenta, Jessica K., Jason D. Weckstein, Daniel F. Lane. 2005. Geographic variation in mitochondrial DNA sequences of an Amazonian nonpasserine: The Black-spotted Barbet complex. The Condor 107 (3): 527-536.
https://doi.org/10.1650/0010-5422(2005)107[0527:gvimds]2.0.co;2
Arora D., & Frank J.L. 2014. Clarifying the Butter Boletes: a new genus, Butyriboletus, is established to accommodate Boletus sect. Appendiculati, and seven new species are described. Mycologia, 106(3): 464-480.
https://doi.org/10.3852/13-052
Arshad, Muhammad, Javier Gonzalez, Abdel Aziz El-Sayed, Tim Osborne, Michael Wink. 2009. Phylogeny and phylogeography of critically endangered Gyps species based on nuclear and mitochondrial markers. Journal of Ornithology 150 (2): 419-430.
https://doi.org/10.1007/s10336-008-0359-x
Arunpak Pitakpong, Ekaphan Kraichak, Khwanruan Butsathorn Papong, Nooduan Muangsan, Pongthep Suwanwaree, H. Thorsten Lumbsch, Robert Lücking, 2015, 'New species and records of the lichen genus Graphis (Graphidaceae, Ascomycota) from Thailand', The Lichenologist, vol. 47, no. 05, pp. 335-342
https://doi.org/10.1017/s0024282915000213
Ashman, L. G., Hartley, D., Jin, M., Rowell, D. M., Teasdale, L., Ślipiński, A., & Zwick, A. (2022). Rhytiphora: a phylogenetic and morphological study of Australia’s largest longhorn beetle genus (Coleoptera: Cerambycidae). Invertebrate Systematics, 36(6), 493. https://doi.org/10.1071/is21071
https://doi.org/10.1071/is21071
Assmar, A. C., Pires Machado, R. J., & Calor, A. R. (2022). Taxonomic revision and first phylogeny of Climacia McLachlan, 1869 (Neuroptera: Sisyridae), with new species and identification key. Zoologischer Anzeiger, 299, 128–175. https://doi.org/10.1016/j.jcz.2022.05.004
https://doi.org/10.1016/j.jcz.2022.05.004
Astrid Cornils, Leocadio Blanco-Bercial, 2013, 'Phylogeny of the Paracalanidae Giesbrecht, 1888 (Crustacea: Copepoda: Calanoida)', Molecular Phylogenetics and Evolution, vol. 69, no. 3, pp. 861-872
https://doi.org/10.1016/j.ympev.2013.06.018
Astruc, C., Julien, J. F., Errard, C., & Lenoir, A. (2004). Phylogeny of ants (Formicidae) based on morphology and DNA sequence data. Molecular Phylogenetics and Evolution, 31(3), 880–893. https://doi.org/10.1016/j.ympev.2003.10.024
https://doi.org/10.1016/j.ympev.2003.10.024
Auger‐Rozenberg, M., Kerdelhué, C., Magnoux, E., Turgeon, J., Rasplus, J., & Roques, A. (2005). Molecular phylogeny and evolution of host‐plant use in conifer seed chalcids in the genus Megastigmus (Hymenoptera: Torymidae). Systematic Entomology, 31(1), 47–64. Portico. https://doi.org/10.1111/j.1365-3113.2005.00310.x
https://doi.org/10.1111/j.1365-3113.2005.00310.x
Ayivi, S. P. G., Tong, Y., Storey, K. B., Yu, D.-N., & Zhang, J.-Y. (2021). The Mitochondrial Genomes of 18 New Pleurosticti (Coleoptera: Scarabaeidae) Exhibit a Novel trnQ-NCR-trnI-trnM Gene Rearrangement and Clarify Phylogenetic Relationships of Subfamilies within Scarabaeidae. Insects, 12(11), 1025. https://doi.org/10.3390/insects12111025
https://doi.org/10.3390/insects12111025
Azani, Nasim, et al. "A new subfamily classification of the Leguminosae based on a taxonomically comprehensive phylogeny The Legume Phylogeny Working Group (LPWG)." Taxon 66.1 (2017): 44-77.
https://doi.org/10.12705/661.3
Azevedo E., Barata M., Marques I.M., & Caeiro M.F. 2017. Lulworthia atlantica: a new species supported by molecular phylogeny and morphological analysis. Mycologia, 109(2): 287-295.
https://doi.org/10.1080/00275514.2017.1302255
BADANO, D., ASPÖCK, U., ASPÖCK, H., & CERRETTI, P. (2016). Phylogeny of <scp>M</scp>yrmeleontiformia based on larval morphology (<scp>N</scp>europterida: <scp>N</scp>europtera). Systematic Entomology, 42(1), 94–117. Portico. https://doi.org/10.1111/syen.12200
https://doi.org/10.1111/syen.12200
BALVÍN, O., ROTH, S., & VILÍMOVÁ, J. (2015). Molecular evidence places the swallow bug genus Oeciacus Stål within the bat and bed bug genus Cimex Linnaeus (Heteroptera: Cimicidae). Systematic Entomology, 40(3), 652–665. Portico. https://doi.org/10.1111/syen.12127
https://doi.org/10.1111/syen.12127
BARANOV, V. A., KVIFTE, G. M., & PERKOVSKY, E. E. (2016). Two new species of fossil Corethrella Coquillett from Late Eocene Rovno amber, with a species‐level phylogeny for the family based on morphological traits (Diptera: Corethrellidae). Systematic Entomology, 41(3), 531–540. Portico. https://doi.org/10.1111/syen.12172
https://doi.org/10.1111/syen.12172
BELL, K. L., & PHILIPS, T. K. (2012). Molecular systematics and evolution of the Ptinidae (Coleoptera: Bostrichoidea) and related families. Zoological Journal of the Linnean Society, 165(1), 88–108. https://doi.org/10.1111/j.1096-3642.2011.00792.x
https://doi.org/10.1111/j.1096-3642.2011.00792.x
BELOKOBYLSKIJ, S. A., ZALDIVAR-RIVERÓN, A., & QUICKE, D. L. J. (2004). Phylogeny of the genera of the parasitic wasps subfamily Doryctinae (Hymenoptera: Braconidae) based on morphological evidence. Zoological Journal of the Linnean Society, 142(3), 369–404. https://doi.org/10.1111/j.1096-3642.2004.00133.x
https://doi.org/10.1111/j.1096-3642.2004.00133.x
BERNIKER, L., & WEIRAUCH, C. (2011). New World biogeography and the evolution of polychromatism: evidence from the bee assassin genus Apiomerus (Heteroptera: Reduviidae: Harpactorinae). Systematic Entomology, 37(1), 32–54. Portico. https://doi.org/10.1111/j.1365-3113.2011.00600.x
https://doi.org/10.1111/j.1365-3113.2011.00600.x
BERTONE, M. A., COURTNEY, G. W., & WIEGMANN, B. M. (2008). Phylogenetics and temporal diversification of the earliest true flies (Insecta: Diptera) based on multiple nuclear genes. Systematic Entomology, 33(4), 668–687. Portico. https://doi.org/10.1111/j.1365-3113.2008.00437.x
https://doi.org/10.1111/j.1365-3113.2008.00437.x
BEUTEL, R. G., & ŚLIPIŃSKI, S. A. (2001). Comparative study of head structures of larvae of Sphindidae and Protocucujidae (Coleoptera: Cucujoidea). European Journal of Entomology, 98(2), 219–232. https://doi.org/10.14411/eje.2001.039
https://doi.org/10.14411/eje.2001.039
BEUTEL, R. G., FRIEDRICH, F., & ASPÖCK, U. (2010). The larval head of Nevrorthidae and the phylogeny of Neuroptera (Insecta). Zoological Journal of the Linnean Society, 158(3), 533–562. https://doi.org/10.1111/j.1096-3642.2009.00560.x
https://doi.org/10.1111/j.1096-3642.2009.00560.x
BILTON, D. T., TOUSSAINT, E. F. A., TURNER, C. R., & BALKE, M. (2015). Capelatus prykei gen. et sp.n. (Coleoptera: Dytiscidae: Copelatinae) – a phylogenetically isolated diving beetle from the Western Cape of South Africa. Systematic Entomology, 40(3), 520–531. Portico. https://doi.org/10.1111/syen.12128
https://doi.org/10.1111/syen.12128
BLAIMER, B. B. (2011). Untangling complex morphological variation: taxonomic revision of the subgenus Crematogaster (Oxygyne) in Madagascar, with insight into the evolution and biogeography of this enigmatic ant clade (Hymenoptera: Formicidae). Systematic Entomology, 37(2), 240–260. Portico. https://doi.org/10.1111/j.1365-3113.2011.00609.x
https://doi.org/10.1111/j.1365-3113.2011.00609.x
BLASCHKE, J. D., STIREMAN, J. O., O’HARA, J. E., CERRETTI, P., & MOULTON, J. K. (2018). Molecular phylogenetics and piercer evolution in the bug‐killing flies (Diptera: Tachinidae: Phasiinae). Systematic Entomology, 43(1), 218–238. Portico. https://doi.org/10.1111/syen.12272
https://doi.org/10.1111/syen.12272
BOCEK, M., FANCELLO, L., MOTYKA, M., BOCAKOVA, M., & BOCAK, L. (2017). The molecular phylogeny of Omalisidae (Coleoptera) defines the family limits and demonstrates low dispersal propensity and ancient vicariance patterns. Systematic Entomology, 43(2), 250–261. Portico. https://doi.org/10.1111/syen.12271
https://doi.org/10.1111/syen.12271
BOLOGNA, M. A., DI GIULIO, A., & PITZALIS, M. (2008). Systematics and biogeography of the genusActenodia(Coleoptera: Meloidae: Mylabrini). Systematic Entomology, 33(2), 319–360. Portico. https://doi.org/10.1111/j.1365-3113.2007.00402.x
https://doi.org/10.1111/j.1365-3113.2007.00402.x
BORKENT, A. (2014). The Pupae of the Biting Midges of the World (Diptera: Ceratopogonidae), With a Generic Key and Analysis of the Phylogenetic Relationships Between Genera. Zootaxa, 3879(1). https://doi.org/10.11646/zootaxa.3879.1.1
https://doi.org/10.11646/zootaxa.3879.1.1
BOYLE, J. H., KALISZEWSKA, Z. A., ESPELAND, M., SUDERMAN, T. R., FLEMING, J., HEATH, A., & PIERCE, N. E. (2014). Phylogeny of the <scp>A</scp>phnaeinae: myrmecophilous <scp>A</scp>frican butterflies with carnivorous and herbivorous life histories. Systematic Entomology, 40(1), 169–182. Portico. https://doi.org/10.1111/syen.12098
https://doi.org/10.1111/syen.12098
BRABY, M. F., & PIERCE, N. E. (2006). Systematics, biogeography and diversification of the Indo‐Australian genusDeliasHübner (Lepidoptera: Pieridae): phylogenetic evidence supports an ‘out‐of‐Australia’ origin. Systematic Entomology, 32(1), 2–25. Portico. https://doi.org/10.1111/j.1365-3113.2006.00349.x
https://doi.org/10.1111/j.1365-3113.2006.00349.x
BRABY, M. F., VILA, R., & PIERCE, N. E. (2006). Molecular phylogeny and systematics of the Pieridae (Lepidoptera: Papilionoidea): higher classification and biogeography. Zoological Journal of the Linnean Society, 147(2), 239–275. https://doi.org/10.1111/j.1096-3642.2006.00218.x
https://doi.org/10.1111/j.1096-3642.2006.00218.x
BRADLER, S., ROBERTSON, J. A., & WHITING, M. F. (2014). A molecular phylogeny of <scp>P</scp>hasmatodea with emphasis on <scp>N</scp>ecrosciinae, the most species‐rich subfamily of stick insects. Systematic Entomology, 39(2), 205–222. Portico. https://doi.org/10.1111/syen.12055
https://doi.org/10.1111/syen.12055
BRAKE, I., & MATHIS, W. N. (2007). Revision of the genus Australimyza Harrison (Diptera: Australimyzidae). Systematic Entomology, 32(2), 252–275. Portico. https://doi.org/10.1111/j.1365-3113.2006.00363.x
https://doi.org/10.1111/j.1365-3113.2006.00363.x
BRANSTETTER, M. G. (2012). Origin and diversification of the cryptic ant genus Stenamma Westwood (Hymenoptera: Formicidae), inferred from multilocus molecular data, biogeography and natural history. Systematic Entomology, 37(3), 478–496. Portico. https://doi.org/10.1111/j.1365-3113.2012.00624.x
https://doi.org/10.1111/j.1365-3113.2012.00624.x
BRATTSTRÖM, O., ADUSE‐POKU, K., COLLINS, S. C., DI MICCO DE SANTO, T., & BRAKEFIELD, P. M. (2015). Revision of the Bicyclus sciathis species group (Lepidoptera: Nymphalidae) with descriptions of four new species and corrected distributional records. Systematic Entomology, 41(1), 207–228. Portico. https://doi.org/10.1111/syen.12150
https://doi.org/10.1111/syen.12150
BUFFINGTON, M. L., BRADY, S. G., MORITA, S. I., & VAN NOORT, S. (2012). Divergence estimates and early evolutionary history of Figitidae (Hymenoptera: Cynipoidea). Systematic Entomology, 37(2), 287–304. Portico. https://doi.org/10.1111/j.1365-3113.2012.00617.x
https://doi.org/10.1111/j.1365-3113.2012.00617.x
BURCKHARDT, D., & OUVRARD, D. (2006). The taxonomy, biogeography and host plant relationships of jumping plant‐lice (Hemiptera: Psyllidae) associated with creosote bushes (Larrea spp., Zygophyllaceae). Systematic Entomology, 32(1), 136–155. Portico. https://doi.org/10.1111/j.1365-3113.2006.00352.x
https://doi.org/10.1111/j.1365-3113.2006.00352.x
Baca, S. M., & Short, A. E. Z. (2020). Molecular Phylogeny of the Notomicrine Water Beetles (Coleoptera: Noteridae) Reveals Signatures of Gondwanan Vicariance and Ecological Plasticity. Insect Systematics and Diversity, 4(6). https://doi.org/10.1093/isd/ixaa015
https://doi.org/10.1093/isd/ixaa015
Baeza, J. 2013. Baeza, J.A. 2013. Multi-locus molecular phylogeny of broken-back shrimps (genus Lysmata and allies): a test of the 'Tomlinson-Ghiselin' hypothesis explaining the evolution of simultaneous hermaphroditism. Molecular Evolution and Phylogenetics 69 (1): 46-62.
https://doi.org/10.1016/j.ympev.2013.05.013
Balci Y., Balci S., Blair J., Park S., Kang S., & Macdonald W. 2007. Phytophthora quercetorum sp. nov., a novel species isolated from eastern and north-central US oak forest soils. Mycological Research, null.
No link provided! Try
Google Scholar or
CrossRef.org
Baldwin B.G., Kalisz S., & Armbruster W.S. 2011. Phylogenetic perspectives on diversification, biogeography, and floral evolution of Collinsia and Tonella (Plantaginaceae). American Journal of Botany, 98(4): 731-753.
https://doi.org/10.3732/ajb.1000346
Balke, M., Ribera, I., & Vogler, A. P. (2004). MtDNA phylogeny and biogeography of Copelatinae, a highly diverse group of tropical diving beetles (Dytiscidae). Molecular Phylogenetics and Evolution, 32(3), 866–880. https://doi.org/10.1016/j.ympev.2004.03.014
https://doi.org/10.1016/j.ympev.2004.03.014
Balke, M., Watts, C. H. S., Cooper, S. J. B., Humphreys, W. F., & Vogler, A. P. (2004). A highly modified stygobiont diving beetle of the genus Copelatus (Coleoptera, Dytiscidae): taxonomy and cladistic analysis based on mitochondrial DNA sequences. Systematic Entomology, 29(1), 59–67. Portico. https://doi.org/10.1111/j.1365-3113.2004.00229.x
https://doi.org/10.1111/j.1365-3113.2004.00229.x
Ban S., Sakane T., Toyama K., & Nakagiri A. 2009. Teleomorph-anamorph relationships and reclassification of Cordyceps cuboidea and its allied species. Mycoscience, 50: 261-272.
https://doi.org/10.1007/s10267-008-0480-y
Bank, S., & Bradler, S. (2022). A second view on the evolution of flight in stick and leaf insects (Phasmatodea). BMC Ecology and Evolution, 22(1). https://doi.org/10.1186/s12862-022-02018-5
https://doi.org/10.1186/s12862-022-02018-5
Bank, S., Buckley, T. R., Büscher, T. H., Bresseel, J., Constant, J., de Haan, M., Dittmar, D., Dräger, H., Kahar, R. S., Kang, A., Kneubühler, B., Langton‐Myers, S. S., & Bradler, S. (2021). Reconstructing the nonadaptive radiation of an ancient lineage of ground‐dwelling stick insects (Phasmatodea: Heteropterygidae). Systematic Entomology, 46(3), 487–507. Portico. https://doi.org/10.1111/syen.12472
https://doi.org/10.1111/syen.12472
Bank, S., Cumming, R. T., Li, Y., Henze, K., Le Tirant, S., & Bradler, S. (2021). A tree of leaves: Phylogeny and historical biogeography of the leaf insects (Phasmatodea: Phylliidae). Communications Biology, 4(1). https://doi.org/10.1038/s42003-021-02436-z
https://doi.org/10.1038/s42003-021-02436-z
Bank, S., Sann, M., Mayer, C., Meusemann, K., Donath, A., Podsiadlowski, L., Kozlov, A., Petersen, M., Krogmann, L., Meier, R., Rosa, P., Schmitt, T., Wurdack, M., Liu, S., Zhou, X., Misof, B., Peters, R. S., & Niehuis, O. (2017). Transcriptome and target DNA enrichment sequence data provide new insights into the phylogeny of vespid wasps (Hymenoptera: Aculeata: Vespidae). Molecular Phylogenetics and Evolution, 116, 213–226. https://doi.org/10.1016/j.ympev.2017.08.020
https://doi.org/10.1016/j.ympev.2017.08.020
Banks, J., & Paterson A. 2004. A penguin-chewing louse (Insecta: Phthiraptera) phylogeny derived from morphology. Invertebrate Systematics 18 (1): 89-100.
https://doi.org/10.1071/IS03022
Barber N.A., Jones H.P., Duvall M.R., Wysocki W.P., Hansen M.J., & Gibson D.J. 2016. Phylogenetic diversity is maintained despite richness losses over time in restored tallgrass prairie plant communities. Journal of Applied Ecology, .
https://doi.org/10.1111/1365-2664.12639
Barber-James, H. M. (2009). A preliminary phylogeny of Prosopistomatidae (Ephemeroptera) based on morphological characters of the larvae, and an assessment of their distribution. Aquatic Insects, 31(sup1), 149–166. https://doi.org/10.1080/01650420903020502
https://doi.org/10.1080/01650420903020502
Barker, F. K., K. J. Burns, J. Klicka, S. M. Lanyon, I. J. Lovette. 2013. Going to extremes: contrasting rates of diversification in a recent radiation of New World passerine birds. Systematic Biology 62 (2): 298-320.
https://doi.org/10.1093/sysbio/sys094
Barker, F. Keith, Alice Cibois, Peter Schikler, Julie Feinstein, Joel Cracraft. 2004. Phylogeny and diversification of the largest avian radiation. Proceedings of the National Academy of Sciences of the United States of America 101 (30): 11040-11045.
https://doi.org/10.1073/pnas.0401892101
Barker, F. Keith, Kevin J. Burns, John Klicka, Scott M. Lanyon, Irby J. Lovette. 2015. New insights into New World biogeography: An integrated view from the phylogeny of blackbirds, cardinals, sparrows, tanagers, warblers, and allies. The Auk 132 (2): 333-348.
https://doi.org/10.1642/auk-14-110.1
Barker, F.K. 2014. Mitogenomic data resolve basal relationships among passeriform and passeridan birds. Molecular Phylogenetics and Evolution 79: 313-324.
https://doi.org/10.1016/j.ympev.2014.06.011
Barker, S. C., Whiting, M., Johnson, K. P., & Murrell, A. (2003). Phylogeny of the lice (Insecta, Phthiraptera) inferred from small subunit rRNA. Zoologica Scripta, 32(5), 407–414. Portico. https://doi.org/10.1046/j.1463-6409.2003.00120.x
https://doi.org/10.1046/j.1463-6409.2003.00120.x
Barnes I., Roux J., Wingfield B., Dudzinski M., Old K., & Wingfield M.J. 2003. Ceratocystis pirilliformis, a new species from Eucalyptus nitens in Australia. Mycologia 95, no. 5 (2003): 865-871.
https://doi.org/10.2307/3762015
Barns, S. M., C. F. Delwiche, J. D. Palmer, N. R. Pace. 1996. Perspectives on archaeal diversity, thermophily and monophyly from environmental rRNA sequences. Proceedings of the National Academy of Sciences 93 (17): 9188-9193.
https://doi.org/10.1073/pnas.93.17.9188
Barrett R., Bayly M.J., Duretto M., Forster P.I., Ladiges P.Y., & Cantrill D.J. 2018. Phylogenetic analysis of Zieria (Rutaceae) in Australia and New Caledonia based on nuclear ribosomal DNA shows species polyphyly, divergent paralogues and incongruence with chloroplast DNA. Australian Systematic Botany, 31: 16-47.
https://doi.org/10.1071/SB16034
Bartosova P., Fiala I., & Hypsa V. 2009. Concatenated SSU and LSU rDNA data confirm the main evolutionary trends within myxosporeans (Myxozoa: Myxosporea) and provide an effective tool for their molecular phylogenetics. Molecular Phylogenetics and Evolution, 53(1): 81-93.
https://doi.org/10.1016/j.ympev.2009.05.018
Basso, A., Negrisolo, E., Zilli, A., Battisti, A., & Cerretti, P. (2016). A total evidence phylogeny for the processionary moths of the genus Thaumetopoea (Lepidoptera: Notodontidae: Thaumetopoeinae). Cladistics, 33(6), 557–573. Portico. https://doi.org/10.1111/cla.12181
https://doi.org/10.1111/cla.12181
Basílio, D. S., Cherman, M. A., Vaz-De-Mello, F. Z., & Almeida, L. M. (2023). Phylogenetic relationships in Hybosoridae (Coleoptera: Scarabaeoidea). Zoological Journal of the Linnean Society, 198(4), 1156–1170. https://doi.org/10.1093/zoolinnean/zlac095
https://doi.org/10.1093/zoolinnean/zlac095
Batelka, J., Kundrata, R., & Straka, J. (2025). Phylogenomics and revised classification of Lymexyloidea and Tenebrionoidea (Coleoptera: Polyphaga: Cucujiformia). Systematic Entomology, 50(4), 794–812. Portico. https://doi.org/10.1111/syen.12683
https://doi.org/10.1111/syen.12683
Batista, R., Olsson, U., Andermann, T., Aleixo, A., Ribas, C. C., & Antonelli, A. (2020). Phylogenomics and biogeography of the world’s thrushes (Aves,
Turdus
): new evidence for a more parsimonious evolutionary history. Proceedings of the Royal Society B: Biological Sciences, 287(1919), 20192400. https://doi.org/10.1098/rspb.2019.2400
https://doi.org/10.1098/rspb.2019.2400
Bauer, F., Stübner, A., Neinhuis, C., & Nuss, M. (2012). Molecular phylogeny, larval case architecture, host–plant associations and classification of European Coleophoridae (Lepidoptera). Zoologica Scripta, 41(3), 248–265. Portico. https://doi.org/10.1111/j.1463-6409.2012.00532.x
https://doi.org/10.1111/j.1463-6409.2012.00532.x
Bayless, K. M., Trautwein, M. D., Meusemann, K., Shin, S., Petersen, M., Donath, A., Podsiadlowski, L., Mayer, C., Niehuis, O., Peters, R. S., Meier, R., Kutty, S. N., Liu, S., Zhou, X., Misof, B., Yeates, D. K., & Wiegmann, B. M. (2021). Beyond Drosophila: resolving the rapid radiation of schizophoran flies with phylotranscriptomics. BMC Biology, 19(1). https://doi.org/10.1186/s12915-020-00944-8
https://doi.org/10.1186/s12915-020-00944-8
Bazinet, A. L., Mitter, K. T., Davis, D. R., Van Nieukerken, E. J., Cummings, M. P., & Mitter, C. (2017). Phylotranscriptomics resolves ancient divergences in the Lepidoptera. Systematic Entomology, 42(2), 305-316
https://doi.org/10.1111/syen.12217
Beasley‐Hall, P. G., Rose, H. A., Walker, J., Kinjo, Y., Bourguignon, T., & Lo, N. (2021). Digging deep: a revised phylogeny of Australian burrowing cockroaches (Blaberidae: Panesthiinae, Geoscapheinae) confirms extensive nonmonophyly and provides insights into biogeography and evolution of burrowing. Systematic Entomology, 46(4), 767–783. Portico. https://doi.org/10.1111/syen.12487
https://doi.org/10.1111/syen.12487
Beasley‐Hall, P. G., Trewick, S. A., Eberhard, S. M., Zwick, A., Reed, E. H., Cooper, S. J. B., & Austin, A. D. (2025). Molecular phylogenetics illuminates the evolutionary history and hidden diversity of Australian cave crickets (Orthoptera: Rhaphidophoridae). Systematic Entomology, 50(4), 975–987. Portico. https://doi.org/10.1111/syen.12690
https://doi.org/10.1111/syen.12690
Bechteler, J., Peñaloza‐Bojacá, G., Bell, D., Gordon Burleigh, J., McDaniel, S. F., Christine Davis, E., Sessa, E. B., Bippus, A., Christine Cargill, D., Chantanoarrapint, S., Draper, I., Endara, L., Forrest, L. L., Garilleti, R., Graham, S. W., Huttunen, S., Lazo, J. J., Lara, F., Larraín, J., … Villarreal A., J. C. (2023). Comprehensive phylogenomic time tree of bryophytes reveals deep relationships and uncovers gene incongruences in the last 500 million years of diversification. American Journal of Botany, 110(11). Portico. https://doi.org/10.1002/ajb2.16249
https://doi.org/10.1002/ajb2.16249
Bell, C. D. (2007). Phylogenetic placement and biogeography of the North American species of Valerianella (Valerianaceae: Dipsacales) based on chloroplast and nuclear DNA. Molecular phylogenetics and evolution, 44(3), 929-941.
https://doi.org/10.1016/j.ympev.2007.03.013
Bell-Roberts, L., Douglas, A. E., & Werner, G. D. A. (2019). Match and mismatch between dietary switches and microbial partners in plant sap-feeding insects. Proceedings of the Royal Society B: Biological Sciences, 286(1902), 20190065. https://doi.org/10.1098/rspb.2019.0065
https://doi.org/10.1098/rspb.2019.0065
Bellini, B. C., Zhang, F., de Souza, P. G. C., dos Santos-Costa, R. C., Medeiros, G. da S., & Godeiro, N. N. (2022). The Evolution of Collembola Higher Taxa (Arthropoda, Hexapoda) Based on Mitogenome Data. Diversity, 15(1), 7. https://doi.org/10.3390/d15010007
https://doi.org/10.3390/d15010007
Belshaw, R., & Quicke, D. L. J. (1997). A Molecular Phylogeny of the Aphidiinae (Hymenoptera: Braconidae). Molecular Phylogenetics and Evolution, 7(3), 281–293. https://doi.org/10.1006/mpev.1996.0400
https://doi.org/10.1006/mpev.1996.0400
Benayahu Y, Ofwegen LP van, Soong K, Dai C-F, Jeng M-S, Shlagman A, Hsieh HJ, McFadden CS (2013) Diversity and distribution of Octocorals (Coelenterata: Anthozoa) on the coral reefs of Penghu, Taiwan. Zoological Studies 51: 1529-1548.
http://zoolstud.sinica.edu.tw/Journals/51.8/1529
Bendiksby, M., Thorbek, L., Scheen, A. C., Lindqvist, C., & Ryding, O. (2011). An updated phylogeny and classification of Lamiaceae subfamily Lamioideae. Taxon, 60(2), 471-484.
http://www.ingentaconnect.com/content/iapt/tax/2011/00000060/00000002/art00015
Benedict King, Tuo Qiao, Michael S. Y. Lee, Min Zhu, John A. Long, 2016, 'Bayesian Morphological Clock Methods Resurrect Placoderm Monophyly and Reveal Rapid Early Evolution in Jawed Vertebrates', Systematic Biology, p. syw107
https://doi.org/10.1093/sysbio/syw107
Benjamin Ollomo, Patrick Durand, Franck Prugnolle, Emmanuel Douzery, Celine Arnathau, Dieudonne Nkoghe, Eric Leroy, Francois Renaud, 2009, 'A New Malaria Agent in African Hominids', PLoS Pathogens, vol. 5, no. 5, p. e1000446
https://doi.org/10.1371/journal.ppat.1000446
Bennett, A. M. R. (2001). Phylogeny of Agriotypinae (Hymenoptera: Ichneumonidae), with comments on the subfamily relationships of the basal Ichneumonidae. Systematic Entomology, 26(3), 329–356. Portico. https://doi.org/10.1046/j.0307-6970.2001.00155.x
https://doi.org/10.1046/j.0307-6970.2001.00155.x
Bennett, A. M. R., Cardinal, S., Gauld, I. D., & Wahl, D. B. (2019). Phylogeny of the subfamilies of Ichneumonidae (Hymenoptera). Journal of Hymenoptera Research, 71, 1–156. https://doi.org/10.3897/jhr.71.32375
https://doi.org/10.3897/jhr.71.32375
Bennett, K. F. P., Wood, A. W., Baiz, M. D., Phung, L.-N., Lovette, I. J., & Toews, D. P. L. (2025). A colorful legacy of hybridization in wood-warblers includes frequent sharing of carotenoid genes among species and genera. PLOS Biology, 23(12), e3003501. https://doi.org/10.1371/journal.pbio.3003501
https://doi.org/10.1371/journal.pbio.3003501
Benny K. K. Chan, Hsiu-Chin Lin, Yi-Yang Chen, 2013, 'Biodiversity and host specificity of coral barnacles of Galkinia (Cirripedia: Pyrgomatidae) in Taiwan, with descriptions of six new species', Journal of Crustacean Biology, vol. 33, no. 3, pp. 392-431
https://doi.org/10.1163/1937240x-00002134
Benny K.K. CHAN, Chi Chiu CHEANG, I-Han CHEN, Gregory A. KOLBASOV, 2013, '<p><strong>Acrothoracican barnacles (Lithoglyptida) in Taiwan, including the taxonomic status of <em>Balanodytes</em> <em>taiwanus</em> Utinomi, 1950 and cryptic diversity of <em>Auritoglyptes bicornis</em> (Aurivillius, 1892)</strong></p>', Zootaxa, vol. 3694, no. 3, p. 221
https://doi.org/10.11646/zootaxa.3694.3.3
Bentlage B. 2010. Evolution of box jellyfish (Cnidaria: Cubozoa), a group of highly toxic invertebrates. Proceedings of the Royal Society B: Biological Sciences, 277(1680): 493-501.
https://doi.org/10.1098/rspb.2009.1707
Benz, Brett W., Mark B. Robbins, A. Townsend Peterson. 2006. Evolutionary history of woodpeckers and allies (Aves: Picidae): placing key taxa on the phylogenetic tree. Molecular Phylogenetics and Evolution 40 (2): 389-399.
https://doi.org/10.1016/j.ympev.2006.02.021
Benz, Brett W., Mark B. Robbins. 2011. Molecular phylogenetics, vocalizations, and species limits in Celeus woodpeckers (Aves: Picidae). Molecular Phylogenetics and Evolution 61 (1): 29-44.
https://doi.org/10.1016/j.ympev.2011.05.001
Beresford, P., F.K. Barker, P.G. Ryan, T.M. Crowe. 2005. African endemics span the tree of songbirds (Passeri): molecular systematics of several evolutionary 'enigmas'. Proceedings of the Royal Society B: Biological Sciences 272 (1565): 849-858
https://doi.org/10.1098/rspb.2004.2997
Bergsten, J., Nylander, J. A. A., Ospina, O. E., Lemmon, A. R., & Miller, K. B. (2025). Whole genome shotgun phylogenomics resolve the diving beetle tree of life. Systematic Entomology. Portico. https://doi.org/10.1111/syen.12685
https://doi.org/10.1111/syen.12685
Bernhard, D., Beutel, R., Komarek, A., & Ribera, I. (2009). Phylogenetic analysis of Hydrophiloidea (Coleoptera: Polyphaga) based on molecular data and morphological characters of adults and immature stages. Insect Systematics & Evolution, 40(1), 3–41. https://doi.org/10.1163/187631209x416741
https://doi.org/10.1163/187631209x416741
Bertelli, Sara, Ana Luz Porzecanski. 2004. Tinamou (Tinamidae) systematics: a preliminary combined analysis of morphology and molecules. 2004. Ornithologia Neotropical 15: 293-299
https://sora.unm.edu/sites/default/files/journals/on/v015s/p0293-p0300.pdf
Besnard, Guillaume, Joris A. M. Bertrand, Boris Delahaie, Yann X. C. Bourgeois, Emeline Lhuillier, Christophe Thébaud. 2015. Valuing museum specimens: high-throughput DNA sequencing on historical collections of New Guinea crowned pigeons (Goura). Biological Journal of the Linnean Society 117 (1): 71-82
https://doi.org/10.1111/bij.12494
Bess, E. C., Doust, A. N., & Kellogg, E. A. (2005). A Naked Grass in the “Bristle Clade”: A Phylogenetic and Developmental Study of Panicum Section Bulbosa (Paniceae: Poaceae). International Journal of Plant Sciences, 166(3), 371–381. https://doi.org/10.1086/428701
https://doi.org/10.1086/428701
Betancur-R., Ricardo, Richard E. Broughton, Edward O. Wiley, Kent Carpenter, J. Andrés López, Chenhong Li, Nancy I. Holcroft, Dahiana Arcila, Millicent Sanciangco, James C Cureton II, Feifei Zhang, Thaddaeus Buser, Matthew A. Campbell, Jesus A Ballesteros, Adela Roa-Varon, Stuart Willis, W. Calvin Borden, Thaine Rowley, Paulette C. Reneau, Daniel J. Hough, Guoqing Lu, Terry Grande, Gloria Arratia, Guillermo Ortí. 2013. The Tree of Life and a New Classification of Bony Fishes. PLoS Currents
https://doi.org/10.1371/currents.tol.53ba26640df0ccaee75bb165c8c26288
Beutel, R. G., & Hörnschemeyer, T. (2002). Larval morphology and phylogenetic position of Micromalthus debilis LeConte (Coleoptera: Micromalthidae). Systematic Entomology, 27(2), 169–190. Portico. https://doi.org/10.1046/j.1365-3113.2002.00172.x
https://doi.org/10.1046/j.1365-3113.2002.00172.x
Beutel, R. G., & Leschen, R. A. B. (2005). Phylogenetic analysis of Staphyliniformia (Coleoptera) based on characters of larvae and adults. Systematic Entomology, 30(4), 510–548. Portico. https://doi.org/10.1111/j.1365-3113.2005.00293.x
https://doi.org/10.1111/j.1365-3113.2005.00293.x
Beza-Beza CF, Jiménez-Ferbans L, McKenna DD (2020) Phylogeny and Systematics of Wood-Degrading Neotropical Bess Beetles (Coleoptera: Passalidae: Passalinae). Arthropod Systematics & Phylogeny, 78, 287-308.
https://doi.org/10.26049/ASP78-2-2020-05
Bezuidenhout, C. M., Denman, S., Kirk, S. A., Botha, W. J., Mostert, L., & McLeod, A. (2010). <I>Phytophthora</I> taxa associated with cultivated <I>Agathosma</I>, with emphasis on the <I>P. citricola</I> complex and <I>P. capensis</I> sp. nov. Persoonia - Molecular Phylogeny and Evolution of Fungi, 25(1), 32–49. https://doi.org/10.3767/003158510x538371
https://doi.org/10.3767/003158510x538371
Bhushan Shrestha, Min Woo Hyun, Junsang Oh, Jae-Gu Han, Tae Ho Lee, Jae Youl Cho, Hyojeung Kang, Seong Hwan Kim, Gi-Ho Sung, 2014, 'Molecular evidence of a teleomorph-anamorph connection between Cordyceps scarabaeicola and Beauveria sungii and its implication for the systematics of Cordyceps sensu stricto', Mycoscience, vol. 55, no. 3, pp. 231-239
https://doi.org/10.1016/j.myc.2013.09.004
Bills G., Polishook J., Goetz M., Sullivan R., & White J. 2002. Chaunopycnis pustulata sp. nov., a new clavicipitalean anamorph producing metabolites that modulate potassium ion channels. Mycological Progress, 1(1): 3-17.
https://doi.org/10.1007/s11557-006-0001-3
Binder M., & Bresinsky A. 2002. Retiboletus, a new genus for a species-complex in the Boletaceae producing retipolides. Feddes Repertorium, 113(1-2): 30-40.
https://doi.org/10.1002/1522-239X(200205)113:1/2<30::AID-FEDR30>3.0.CO;2-D
Bischoff J., Sullivan R., Kjer K., & Jr J. 2004. Phylogenetic placement of the anamorphic tribe Ustilaginoideae (Hypocreales, Ascomycota). Mycologia, 96: 1088-1094.
https://doi.org/10.2307/3762091
Bischoff, Joseph F., Priscila Chaverri, and James F. White. "Clarification of the host substrate of Ascopolyporus and description of Ascopolyporus philodendrus sp. nov." Mycologia 97.3 (2005): 710-717.
https://doi.org/10.3852/mycologia.97.3.710
Bischoff, Joseph F., Stephen A. Rehner, and Richard A. Humber. "A multilocus phylogeny of the Metarhizium anisopliae lineage." Mycologia 101.4 (2009): 512-530.
https://doi.org/10.3852/07-202
Bjarte H. Jordal, 2015, 'Molecular phylogeny and biogeography of the weevil subfamily Platypodinae reveals evolutionarily conserved range patterns', Molecular Phylogenetics and Evolution, vol. 92, pp. 294-307
https://doi.org/10.1016/j.ympev.2015.05.028
Blahnik, R. J. (2002). Systematics of Otarrha, a new Neotropical subgenus of Chimarra (Trichoptera: Philopotamidae). Systematic Entomology, 27(1), 65–130. Portico. https://doi.org/10.1046/j.0307-6970.2001.00166.x
https://doi.org/10.1046/j.0307-6970.2001.00166.x
Blaimer, B. B., Brady, S. G., Schultz, T. R., Lloyd, M. W., Fisher, B. L., & Ward, P. S. (2015). Phylogenomic methods outperform traditional multi-locus approaches in resolving deep evolutionary history: a case study of formicine ants. BMC Evolutionary Biology, 15(1). https://doi.org/10.1186/s12862-015-0552-5
https://doi.org/10.1186/s12862-015-0552-5
Blaimer, B. B., Gotzek, D., Brady, S. G., & Buffington, M. L. (2020). Comprehensive phylogenomic analyses re-write the evolution of parasitism within cynipoid wasps. BMC Evolutionary Biology, 20(1). https://doi.org/10.1186/s12862-020-01716-2
https://doi.org/10.1186/s12862-020-01716-2
Blaimer, B. B., LaPolla, J. S., Branstetter, M. G., Lloyd, M. W., & Brady, S. G. (2016). Phylogenomics, biogeography and diversification of obligate mealybug-tending ants in the genus Acropyga. Molecular Phylogenetics and Evolution, 102, 20–29. https://doi.org/10.1016/j.ympev.2016.05.030
https://doi.org/10.1016/j.ympev.2016.05.030
Blanchard, Benjamin D., Corrie S. Moreau. 2016. Defensive traits exhibit an evolutionary trade-off and drive diversification in ants. Evolution
https://doi.org/10.1111/evo.13117
Blanco, Oscar, Ana Crespo, Pradeep K. Divakar, John A. Elix, and H. Thorsten Lumbsch. "Molecular phylogeny of parmotremoid lichens (Ascomycota, Parmeliaceae)." Mycologia 97, no. 1 (2005): 150-159.
https://doi.org/10.3852/mycologia.97.1.150
Blaxter, Mark L., Paul De Ley, James R. Garey, Leo X. Liu, Patsy Scheldeman, Andy Vierstraete, Jacques R. Vanfleteren, Laura Y. Mackey, Mark Dorris, Linda M. Frisse, J. T. Vida, W. Kelley Thomas. 1998. A molecular evolutionary framework for the phylum Nematoda. Nature 392 (6671): 71-75.
https://doi.org/10.1038/32160
Blechschmidt, Karin, Hans-Ulrich Peter, Jacobus De Korte, Michael Wink, Ingrid Seibold, Andreas J. Helbig. 1993. Investigations on the molecular systematics of skuas (Stercorariidae). Zool. Jb. Syst. 120: 379-387.
http://www.uni-heidelberg.de/institute/fak14/ipmb/phazb/pubwink/1993/1.%201993.pdf
Blonder B.W., Baldwin B.G., Enquist B.J., & Robichaux R.H. 2015. Variation and macroevolution in leaf functional traits in the Hawaiian silversword alliance (Asteraceae). Journal of Ecology, .
https://doi.org/10.1111/1365-2745.12497
Boatwright J., Roux M., Wink M., Morozova T., & Wyk B. 2008. Phylogenetic Relationships of the Tribe Crotalarieae (Fabaceae) Inferred from DNA Sequences and Morphology. Systematic botany, 33(4), 752-761.
https://doi.org/10.1600/036364408786500271
Boatwright J., Savolainen V., Wyk B., Schutte-vlok A., Forest F., & Bank M. 2007. Systematic position of the anomolous genus Cadia and the phylogeny of the tribe Podalyrieae (Fabaceae). Systematic Botany, 33(1), 133-147.
https://doi.org/10.1600/036364408783887500
Bocak, L., & Bocakova, M. (2008). Phylogeny and Classification of the Family Lycidae (Insecta: Coleoptera). Annales Zoologici, 58(4), 695–720. https://doi.org/10.3161/000345408x396639
https://doi.org/10.3161/000345408x396639
Bocakova, M., Constantin, R., & Bocak, L. (2011). Molecular phylogenetics of the melyrid lineage (Coleoptera: Cleroidea). Cladistics, 28(2), 117–129. Portico. https://doi.org/10.1111/j.1096-0031.2011.00368.x
https://doi.org/10.1111/j.1096-0031.2011.00368.x
Bock, Christina, Wei Luo, Wolf-Henning Kusber, Eberhard Hegewald, Marie Pažoutová, Lothar Krienitz. 2013. Classification of crucigenoid algae: phylogenetic position of the reinstated genus Lemmermannia, Tetrastrum spp. Crucigenia tetrapedia, and C. lauterbornii (Trebouxiophyceae, Chlorophyta). Journal of Phycology 49 (2): 329-339
https://doi.org/10.1111/jpy.12039
Bockmann, F. A. 1998. Análise Filogenética da Família Heptapteridae (Teleostei, Ostariophysi, Siluriformes) e Redefenição de seus Gêneros. Universidade de São Paulo, São Paulo.
http://www.bv.fapesp.br/pt/bolsas/92751/analise-filogenetica-da-familia-heptapteridae-teleostei-ostariophysi-siluriformes-com-uma-redefi/
Boertmann, D. 1990. Phylogeny of the divers, family Gaviidae (Aves). Steenstrupia 16: 21-36.
https://www.researchgate.net/profile/David-Boertmann/publication/258846478_Phylogeny_of_the_divers_family_Gaviidae_Aves/links/55f6645e08ae7a10cf8b92a8/Phylogeny-of-the-divers-family-Gaviidae-Aves.pdf
Bologna, M. A., & Pinto, J. D. (2001). Phylogenetic studies of Meloidae (Coleoptera), with emphasis on the evolution of phoresy. Systematic Entomology, 26(1), 33–72. Portico. https://doi.org/10.1046/j.1365-3113.2001.00132.x
https://doi.org/10.1046/j.1365-3113.2001.00132.x
Bologna, M. A., Oliverio, M., Pitzalis, M., & Mariottini, P. (2008). Phylogeny and evolutionary history of the blister beetles (Coleoptera, Meloidae). Molecular Phylogenetics and Evolution, 48(2), 679–693. https://doi.org/10.1016/j.ympev.2008.04.019
https://doi.org/10.1016/j.ympev.2008.04.019
Bonaccorso, Elisa, Juan M. Guayasamin, A. Townsend Peterson, Adolfo G. Navarro-Sigüenza. 2011. Molecular phylogeny and systematics of Neotropical toucanets in the genus Aulacorhynchus (Aves, Ramphastidae). Zoologica Scripta 40 (4): 336-349.
https://doi.org/10.1111/j.1463-6409.2011.00475.x
Bonnie R. Lei, Kevin J. Olival, 2014, 'Contrasting Patterns in Mammal–Bacteria Coevolution: Bartonella and Leptospira in Bats and Rodents', PLoS Neglected Tropical Diseases, vol. 8, no. 3, p. e2738
https://doi.org/10.1371/journal.pntd.0002738
Borissov, S. B., Heller, K., Çıplak, B., & Chobanov, D. P. (2023). Origin, evolution and systematics of the genusPoecilimon(Orthoptera: Tettigoniidae)—An outburst of diversification in the Aegean area. Systematic Entomology, 48(1), 198–220. Portico. https://doi.org/10.1111/syen.12580
https://doi.org/10.1111/syen.12580
Borkent, A. (2019). The Phylogenetic Relationships of Cretaceous Biting Midges, with a Key to All Known Genera (Diptera: Ceratopogonidae). American Museum Novitates, 2019(3921), 1. https://doi.org/10.1206/3921.1
https://doi.org/10.1206/3921.1
Borowiec, M. L., Miles Zhang, Y., Neves, K., Ramalho, M. O., Fisher, B. L., Lucky, A., & Moreau, C. S. (2024). Evaluating UCE data adequacy and integrating uncertainty in a comprehensive phylogeny of ants.
https://doi.org/10.1101/2024.07.03.601921
Borowiec, M. L., Rabeling, C., Brady, S. G., Fisher, B. L., Schultz, T. R., & Ward, P. S. (2019). Compositional heterogeneity and outgroup choice influence the internal phylogeny of the ants. Molecular Phylogenetics and Evolution, 134, 111–121. https://doi.org/10.1016/j.ympev.2019.01.024
https://doi.org/10.1016/j.ympev.2019.01.024
Bossert, S., Murray, E. A., Almeida, E. A. B., Brady, S. G., Blaimer, B. B., & Danforth, B. N. (2019). Combining transcriptomes and ultraconserved elements to illuminate the phylogeny of Apidae. Molecular Phylogenetics and Evolution, 130, 121–131. https://doi.org/10.1016/j.ympev.2018.10.012
https://doi.org/10.1016/j.ympev.2018.10.012
Bossert, S., Wood, T. J., Patiny, S., Michez, D., Almeida, E. A. B., Minckley, R. L., Packer, L., Neff, J. L., Copeland, R. S., Straka, J., Pauly, A., Griswold, T., Brady, S. G., Danforth, B. N., & Murray, E. A. (2021). Phylogeny, biogeography and diversification of the mining bee family Andrenidae. Systematic Entomology, 47(2), 283–302. Portico. https://doi.org/10.1111/syen.12530
https://doi.org/10.1111/syen.12530
Boudinot B.E., Probst R.S., Brandão C.R.F., Feitosa R.M., & Ward P. 2016. Out of the Neotropics: newly discovered relictual species sheds light on the biogeographical history of spider ants (Leptomyrmex, Dolichoderinae, Formicidae). Syst Entomol, 41: 658-671.
https://doi.org/10.1111/syen.12181
Boudinot, B. E., Borowiec, M. L., & Prebus, M. M. (2022). Phylogeny, evolution, and classification of the ant genus Lasius, the tribe Lasiini and the subfamily Formicinae (Hymenoptera: Formicidae). Systematic Entomology, 47(1), 113–151. Portico. https://doi.org/10.1111/syen.12522
https://doi.org/10.1111/syen.12522
Bracken-Grissom, Heather D., Maren E. Cannon, Patricia Cabezas, Rodney M. Feldmann, Carrie E. Schweitzer, Shane T. Ahyong, Darryl L. Felder, Rafael Lemaitre, and Keith A. Crandall. 2013. A comprehensive and integrative reconstruction of evolutionary history for Anomura (Crustacea: Decapoda). BMC Evolutionary Biology 13 (1): 128.
https://doi.org/10.1186/1471-2148-13-128
Bracken-Grissom, Heather D., Shane T. Ahyong, Richard D. Wilkinson, Rodney M. Feldmann, Carrie E. Schweitzer, Jesse W. Breinholt, Matthew Bendall, Ferran Palero, Tin-Yam Chan, Darryl L. Felder, Rafael Robles, Ka-Hou Chu, Ling-Ming Tsang, Dohyup Kim, Joel W. Martin, and Keith A. Crandall. 2014.
The emergence of the lobsters: phylogenetic relationships, morphological evolution and divergence time comparisons of an ancient group (Decapoda: Achelata, Astacidea, Glypheidea, Polychelida). Systematic Biology: syu008v1-syu008.
https://doi.org/10.1093/sysbio/syu008
Bracken‐Grissom, H. D., Felder, D. L., Vollmer, N. L., Martin, J. W., & Crandall, K. A. (2012). Phylogenetics links monster larva to deep‐sea shrimp. Ecology and Evolution 2 (10): 2367-2373.
https://doi.org/10.1002/ece3.347
Bradford, T. M., Ruta, R., Cooper, S. J. B., Libonatti, M. L., & Watts, C. H. S. (2022). Evolutionary history of the Australasian Scirtinae (Scirtidae; Coleoptera) inferred from ultraconserved elements. Invertebrate Systematics, 36(4), 291–305. https://doi.org/10.1071/is21053
https://doi.org/10.1071/is21053
Bradler, S., Cliquennois, N., & Buckley, T. R. (2015). Single origin of the Mascarene stick insects: ancient radiation on sunken islands? BMC Evolutionary Biology, 15(1). https://doi.org/10.1186/s12862-015-0478-y
https://doi.org/10.1186/s12862-015-0478-y
Brady, S. G., & Ward, P. S. (2005). Morphological phylogeny of army ants and other dorylomorphs (Hymenoptera: Formicidae). Systematic Entomology, 30(4), 593–618. Portico. https://doi.org/10.1111/j.1365-3113.2005.00290.x
https://doi.org/10.1111/j.1365-3113.2005.00290.x
Brady, S., Schultz T., Fisher B., & Ward P. 2006. Evaluating alternative hypotheses for the early evolution and diversification of ants. Proceedings of the National Academy of Sciences of the United States of America, 103 (48): 18172-18177.
https://doi.org/10.1073/pnas.0605858103
Brandon T. Sinn, Dylan D. Sedmak, Lawrence M. Kelly, John V. Freudenstein, 2018, 'Total duplication of the small single copy region in the angiosperm plastome: Rearrangement and inverted repeat instability in Asarum
', American Journal of Botany, vol. 105, no. 1, pp. 71-84
https://doi.org/10.1002/ajb2.1001
Breinholt, JW, Porter ML, Crandall KA (2012) Testing phylogenetic hypotheses of the subgenera of the freshwater crayfish genus Cambarus (Decapoda: Cambaridae). PLoS ONE 7 (9): e46105
https://doi.org/10.1371/journal.pone.0046105
Breitkreuz, L. C. V., Garzón-Orduña, I. J., Winterton, S. L., & Engel, M. S. (2021). Phylogeny of Chrysopidae (Neuroptera), with emphasis on morphological trait evolution. Zoological Journal of the Linnean Society, 194(4), 1374–1395. https://doi.org/10.1093/zoolinnean/zlab024
https://doi.org/10.1093/zoolinnean/zlab024
Bremer, B., & Eriksson, O. 2009. Time tree of Rubiaceae: Phylogeny and dating the family, subfamilies and tribes. Internat. J. Plant Sci. 170: 766-793.
https://doi.org/10.1086/599077
Bret M. Boyd, Julie M. Allen, Nam Nguyen, Andrew D. Sweet, Tandy Warnow, Michael D. Shapiro, Scott M. Villa, Sarah E. Bush, Dale H. Clayton, Kevin P. Johnson, 2017, '
Phylogenomics using Target-restricted Assembly Resolves Intra-generic Relationships of Parasitic Lice (Phthiraptera:
Columbicola
)
', Systematic Biology, p. syx027
https://doi.org/10.1093/sysbio/syx027
Brett R. Aiello, Mark W. Westneat, Melina E. Hale, 2017, 'Mechanosensation is evolutionarily tuned to locomotor mechanics', Proceedings of the National Academy of Sciences, vol. 114, no. 17, pp. 4459-4464
https://doi.org/10.1073/pnas.1616839114
Brian Tilston Smith, Robert W. Bryson, William M. Mauck, Jaime Chaves, Mark B. Robbins, Alexandre Aleixo, John Klicka, 2018, 'Species delimitation and biogeography of the gnatcatchers and gnatwrens (Aves: Polioptilidae)', Molecular Phylogenetics and Evolution, vol. 126, pp. 45-57
https://doi.org/10.1016/j.ympev.2018.03.012
Bridge, E. S., Jones, A. W., & Baker, A. J. (2005). A phylogenetic framework for the terns (Sternini) inferred from mtDNA sequences: implications for taxonomy and plumage evolution. Molecular Phylogenetics and Evolution, 35(2), 459–469. doi:10.1016/j.ympev.2004.12.010
https://doi.org/10.1016/j.ympev.2004.12.010
Brock, K. M., McTavish, E. J., & Edwards, D. L. (2020). Color Polymorphism is a Driver of Diversification in the Lizard Family Lacertidae. https://doi.org/10.1101/2020.08.27.270207
https://doi.org/10.1101/2020.08.27.270207
Brower, A. V. Z., Freitas, A. V. L., Lee, M., Silva‐Brandão, K. L., Whinnett, A., & Willmott, K. R. (2006). Phylogenetic relationships among the Ithomiini (Lepidoptera: Nymphalidae) inferred from one mitochondrial and two nuclear gene regions. Systematic Entomology, 31(2), 288–301. Portico. https://doi.org/10.1111/j.1365-3113.2006.00321.x
https://doi.org/10.1111/j.1365-3113.2006.00321.x
Brown, B., Dugdale, J. S., Emberson, R. M., & Paterson, A. M. (2000). Phylogeny of New Zealand hepialid moths (Lepidoptera: Hepialidae) inferred from a cladistic analysis of morphological data. Systematic Entomology, 25(1), 1–14. Portico. https://doi.org/10.1046/j.1365-3113.2000.00089.x
https://doi.org/10.1046/j.1365-3113.2000.00089.x
Brown, G. K., Murphy, D. J., & Ladiges, P. Y. (2011). Relationships of the Australo‐Malesian genus Paraserianthes (Mimosoideae: Leguminosae) identifies the sister group of Acacia sensu stricto and two biogeographical tracks. Cladistics, 27(4), 380-390.
https://doi.org/10.1111/j.1096-0031.2011.00349
Brown, G. K., Murphy, D. J., Miller, J. T., & Ladiges, P. Y. (2008). Acacia ss. and its relationship among tropical legumes, Tribe Ingeae (Leguminosae: Mimosoideae). Systematic Botany, 33(4), 739-751.
https://doi.org/10.1600/036364408786500136
Brumfield, R., & Edwards S. 2007. Evolution into and out of the Andes: a Bayesian analysis of historical diversification in Thamnophilus antshrikes. Evolution 61 (2): 346-367.
https://doi.org/10.1111/j.1558-5646.2007.00039.x
Bruno, M. C., Cottarelli, V., Marrone, F., Grasso, R., Stefani, E., Vecchioni, L., & Spena, M. T. (2020). Morphological and molecular characterization of three new Parastenocarididae (Copepoda: Harpacticoida) from caves in Southern Italy. European Journal of Taxonomy, 689. https://doi.org/10.5852/ejt.2020.689
https://doi.org/10.5852/ejt.2020.689
Brusatte S.L., Benson R.B., Chure D., Xing X., Sullivan C., & Hone D.W. 2010. The first definitive carcharodontosaurid (Dinosauria: Theropoda) from Asia and the delayed ascent of tyrannosaurids. Naturwissenschaften, 96: 1051-1058.
https://doi.org/10.1007/s00114-009-0565-2
Brusatte S.L., Benton M.J., Desojo J.B., & Langer M.C. 2010. The higher-level phylogeny of Archosauria (Tetrapoda: Diapsida). Journal of Systematic Palaeontology, 8(1): 3-47.
https://doi.org/10.1080/14772010903537732
Bruxaux, J., Gabrielli, M., Ashari, H., Prŷs-Jones, R., Joseph, L., Milá, B., Besnard, G., & Thébaud, C. (2018). Recovering the evolutionary history of crowned pigeons (Columbidae: Goura): Implications for the biogeography and conservation of New Guinean lowland birds. Molecular Phylogenetics and Evolution, 120, 248–258. https://doi.org/10.1016/j.ympev.2017.11.022
https://doi.org/10.1016/j.ympev.2017.11.022
Bryson, R. W., Faircloth, B. C., Tsai, W. L. E., McCormack, J. E., & Klicka, J. (2016). Target enrichment of thousands of ultraconserved elements sheds new light on early relationships within New World sparrows (Aves: Passerellidae). The Auk, 133(3), 451–458. https://doi.org/10.1642/auk-16-26.1
https://doi.org/10.1642/auk-16-26.1
Brüstle, L., Alaruikka, D., Muona, J., & Teräväinen, M. (2010). The phylogeny of the Pantropical genus Arrhipis Bonvouloir (Coleoptera, Eucnemidae). Cladistics, 26(1), 14–22. Portico. https://doi.org/10.1111/j.1096-0031.2009.00268.x
https://doi.org/10.1111/j.1096-0031.2009.00268.x
Buainain, N., Ferreira, M., Avendaño, J. E., Cadena, C. D., Faircloth, B. C., Brumfield, R. T., Cracraft, J., & Ribas, C. C. (2022). Biogeography of a neotropical songbird radiation reveals similar diversification dynamics between montane and lowland clades. Journal of Biogeography. Portico. https://doi.org/10.1111/jbi.14379
https://doi.org/10.1111/jbi.14379
Bucek, A., Šobotník, J., He, S., Shi, M., McMahon, D. P., Holmes, E. C., Roisin, Y., Lo, N., & Bourguignon, T. (2019). Evolution of Termite Symbiosis Informed by Transcriptome-Based Phylogenies. Current Biology, 29(21), 3728-3734.e4. https://doi.org/10.1016/j.cub.2019.08.076
https://doi.org/10.1016/j.cub.2019.08.076
Bucher, M., Condamine, F. L., Luo, Y., Wang, M., & Bourgoin, T. (2023). Phylogeny and diversification of planthoppers (Hemiptera: Fulgoromorpha) based on a comprehensive molecular dataset and large taxon sampling. Molecular Phylogenetics and Evolution, 186, 107862. https://doi.org/10.1016/j.ympev.2023.107862
https://doi.org/10.1016/j.ympev.2023.107862
Buck, M. (2006). A new family and genus of acalypterate flies from the Neotropical region, with a phylogenetic analysis of Carnoidea family relationships (Diptera, Schizophora). Systematic Entomology, 31(3), 377–404. Portico. https://doi.org/10.1111/j.1365-3113.2006.00328.x
https://doi.org/10.1111/j.1365-3113.2006.00328.x
Buder, G., Grossmann, C., Hundsdoerfer, A., & Klass, K.-D. (2008). A contribution to the phylogeny of the Ciidae and its relationships with other cucujoid and tenebrionoid beetles (Coleoptera: Cucujiformia). Arthropod Systematics & Phylogeny, 66(2), 165–190. https://doi.org/10.3897/asp.66.e31683
https://doi.org/10.3897/asp.66.e31683
Budrys, E., Orlovskytė, S., Lazauskaitė, M., & Budrienė, A. (2023). Ancistroceruswasps (Hymenoptera, Vespidae) from the Centre of Europe: Phylogeny, cryptic species, neutral and non‐neutral markers. Zoologica Scripta, 52(5), 454–474. Portico. https://doi.org/10.1111/zsc.12599
https://doi.org/10.1111/zsc.12599
Buenaventura E., & Pape T. 2015. Phylogeny of the Peckia-genus group: evolution of male genitalia in the major necrophagous guild of Neotropical flesh flies (Diptera: Sarcophagidae). Organism, Diversity and Evolution, : 1-31.
https://doi.org/10.1007/s13127-015-0203-0
Buenaventura, E. (2021). Museomics and phylogenomics with protein-encoding ultraconserved elements illuminate the evolution of life history and phallic morphology of flesh flies (Diptera: Sarcophagidae). BMC Ecology and Evolution, 21(1). https://doi.org/10.1186/s12862-021-01797-7
https://doi.org/10.1186/s12862-021-01797-7
Buenaventura, E., Lloyd, M. W., Perilla López, J. M., González, V. L., Thomas‐Cabianca, A., & Dikow, T. (2020). Protein‐encoding ultraconserved elements provide a new phylogenomic perspective of Oestroidea flies (Diptera: Calyptratae). Systematic Entomology, 46(1), 5–27. Portico. https://doi.org/10.1111/syen.12443
https://doi.org/10.1111/syen.12443
Bueter, C., Weckstein, J., Johnson, K. P., Bates, J. M., & Gordon, C. E. (2009). Comparative Phylogenetic Histories of Two Louse Genera Found on Catharus Thrushes and Other Birds. Journal of Parasitology, 95(2), 295–307. https://doi.org/10.1645/ge-1642.1
https://doi.org/10.1645/ge-1642.1
Bugrov, A., Novikova, O., Mayorov, V., Adkison, L., & Blinov, A. (2005). Molecular phylogeny of Palaearctic genera of Gomphocerinae grasshoppers (Orthoptera, Acrididae). Systematic Entomology, 31(2), 362–368. Portico. https://doi.org/10.1111/j.1365-3113.2005.00317.x
https://doi.org/10.1111/j.1365-3113.2005.00317.x
Burge, D. O. (2011). Molecular Phylogenetics of Garrya (Garryaceae). Madroño, 58(4), 249-255.
https://doi.org/10.3120/0024-9637-58.4.249
Burgess, T. I., Webster, J. L., Ciampini, J. A., White, D., Hardy, G. E. StJ., & Stukely, M. J. C. (2009). Re-evaluation of Phytophthora Species Isolated During 30 Years of Vegetation Health Surveys in Western Australia Using Molecular Techniques. Plant Disease, 93(3), 215–223. https://doi.org/10.1094/pdis-93-3-0215
https://doi.org/10.1094/pdis-93-3-0215
Burks, R. A., Heraty, J. M., Gebiola, M., & Hansson, C. (2011). Combined molecular and morphological phylogeny of Eulophidae (Hymenoptera: Chalcidoidea), with focus on the subfamily Entedoninae. Cladistics, 27(6), 581–605. https://doi.org/10.1111/j.1096-0031.2011.00358.x
https://doi.org/10.1111/j.1096-0031.2011.00358.x
Burlakoti R.R., Neate S.M., Adhikari T., Gyawali S., Salas B., Steffenson B.J., & Schwarz P.B. 2011. Trichothecene Profiling and Population Genetic Analysis of Gibberella zeae from Barley in North Dakota and Minnesota. Phytopathology, 101(6): 687-695.
https://doi.org/10.1094/PHYTO-04-10-0101
Burlakoti, R. R., S. Ali, G. A. Secor, S. M. Neate, M. P. McMullen, and T. B. Adhikari. "Genetic relationships among populations of Gibberella zeae from barley, wheat, potato, and sugar beet in the Upper Midwest of the United States." Phytopathology 98, no. 9 (2008): 969-976.
https://doi.org/10.1094/PHYTO-98-9-0969
Burleigh, J. Gordon, Rebecca T. Kimball, Edward L. Braun. 2015. Building the avian tree of life using a large-scale, sparse supermatrix. Molecular Phylogenetics and Evolution 84: 53-63
https://doi.org/10.1016/j.ympev.2014.12.003
Burns, J. H., Faden, R. B., & Steppan, S. J. 2011. Phylogenetic studies in the Commelinaceae subfamily Commelinoideae inferred from nuclear ribosomal and chloroplast DNA sequences. Syst. Bot. 36: 268-276.
https://doi.org/10.1600/036364411X569471
Burns, Kevin J., Allison J. Shultz, Pascal O. Title, Nicholas A. Mason, F. Keith Barker, John Klicka, Scott M. Lanyon, Irby J. Lovette. 2014. Phylogenetics and diversification of tanagers (Passeriformes: Thraupidae), the largest radiation of Neotropical songbirds. Molecular Phylogenetics and Evolution 75: 41-77.
https://doi.org/10.1016/j.ympev.2014.02.006
Burns, M. D., & Sidlauskas, B. L. (2019). Ancient and contingent body shape diversification in a hyperdiverse continental fish radiation. Evolution, 73(3), 569–587. doi:10.1111/evo.13658
https://doi.org/10.1111/evo.13658
Buček, A., Wang, M., Šobotník, J., Hellemans, S., Sillam-Dussès, D., Mizumoto, N., Stiblík, P., Clitheroe, C., Lu, T., González Plaza, J. J., Mohagan, A., Rafanomezantsoa, J.-J., Fisher, B., Engel, M. S., Roisin, Y., Evans, T. A., Scheffrahn, R., & Bourguignon, T. (2022). Molecular Phylogeny Reveals the Past Transoceanic Voyages of Drywood Termites (Isoptera, Kalotermitidae). Molecular Biology and Evolution, 39(5). https://doi.org/10.1093/molbev/msac093
https://doi.org/10.1093/molbev/msac093
Bybee, S. M., Kalkman, V. J., Erickson, R. J., Frandsen, P. B., Breinholt, J. W., Suvorov, A., Dijkstra, K.-D. B., Cordero-Rivera, A., Skevington, J. H., Abbott, J. C., Sanchez Herrera, M., Lemmon, A. R., Moriarty Lemmon, E., & Ware, J. L. (2021). Phylogeny and classification of Odonata using targeted genomics. Molecular Phylogenetics and Evolution, 160, 107115. https://doi.org/10.1016/j.ympev.2021.107115
https://doi.org/10.1016/j.ympev.2021.107115
Bybee, S. M., Ogden, T. H., Branham, M. A., & Whiting, M. F. (2008). Molecules, morphology and fossils: a comprehensive approach to odonate phylogeny and the evolution of the odonate wing. Cladistics, 24(4), 477–514. Portico. https://doi.org/10.1111/j.1096-0031.2007.00191.x
https://doi.org/10.1111/j.1096-0031.2007.00191.x
Bybee, S. M., Taylor, S. D., Riley Nelson, C., & Whiting, M. F. (2004). A phylogeny of robber flies (Diptera: Asilidae) at the subfamilial level: molecular evidence. Molecular Phylogenetics and Evolution, 30(3), 789–797. https://doi.org/10.1016/s1055-7903(03)00253-7
https://doi.org/10.1016/s1055-7903(03)00253-7
Bärmann, E.V., Rössner G.E., & Wörheide G. 2013. A revised phylogeny of Antilopini (Bovidae, Artiodactyla) using combined mitochondrial and nuclear genes. Molecular Phylogenetics and Evolution 67 (2): 484-493.
https://doi.org/10.1016/j.ympev.2013.02.015
C. Bessega, and R. H. Fortunato. 2010. Section Mimadenia: its phylogenetic relationships within the genus Mimosa (Leguminosae, Mimosoideae) using plastid trnL–F sequence data. Australian Systematic Botany. 24: 104–110.
https://doi.org/10.1071/SB10022
CAI, C., LAWRENCE, J. F., ŚLIPIŃSKI, A., & HUANG, D. (2015). Jurassic artematopodid beetles and their implications for the early evolution of <scp>A</scp>rtematopodidae (<scp>C</scp>oleoptera). Systematic Entomology, 40(4), 779–788. Portico. https://doi.org/10.1111/syen.12131
https://doi.org/10.1111/syen.12131
CAMERON, S. L., LAMBKIN, C. L., BARKER, S. C., & WHITING, M. F. (2006). A mitochondrial genome phylogeny of Diptera: whole genome sequence data accurately resolve relationships over broad timescales with high precision. Systematic Entomology, 32(1), 40–59. Portico. https://doi.org/10.1111/j.1365-3113.2006.00355.x
https://doi.org/10.1111/j.1365-3113.2006.00355.x
CASTRO, L. R., & DOWTON, M. (2006). Mitochondrial genomes in the Hymenoptera and their utility as phylogenetic markers. Systematic Entomology, 32(1), 60–69. Portico. https://doi.org/10.1111/j.1365-3113.2006.00356.x
https://doi.org/10.1111/j.1365-3113.2006.00356.x
CATERINO, M. S., & TISHECHKIN, A. K. (2014). Phylogeny and generic limits in <scp>N</scp>ew <scp>W</scp>orld <scp>E</scp>xosternini (<scp>C</scp>oleoptera: <scp>H</scp>isteridae: <scp>H</scp>isterinae). Systematic Entomology, 40(1), 109–142. Portico. https://doi.org/10.1111/syen.12095
https://doi.org/10.1111/syen.12095
CEOTTO, P., & BOURGOIN, T. (2008). Insights into the phylogenetic relationships within Cixiidae (Hemiptera: Fulgoromorpha): cladistic analysis of a morphological dataset. Systematic Entomology, 33(3), 484–500. Portico. https://doi.org/10.1111/j.1365-3113.2008.00426.x
https://doi.org/10.1111/j.1365-3113.2008.00426.x
CERRETTI, P., O’HARA, J. E., WOOD, D. M., SHIMA, H., INCLAN, D. J., & STIREMAN, J. O. (2014). Signal through the noise? Phylogeny of the <scp>T</scp>achinidae (<scp>D</scp>iptera) as inferred from morphological evidence. Systematic Entomology, 39(2), 335–353. Portico. https://doi.org/10.1111/syen.12062
https://doi.org/10.1111/syen.12062
CHEN, Y.-Z., DENG, W.-A., WANG, J.-M., LIN, L.-L., & ZHOU, S.-Y. (2018). Phylogenetic relationships of Scelimeninae genera (Orthoptera: Tetrigoidea) based on COI, 16S rRNA and 18S rRNA gene sequences. Zootaxa, 4482(2). https://doi.org/10.11646/zootaxa.4482.2.11
https://doi.org/10.11646/zootaxa.4482.2.11
CHENG, M., MUTUTANTRI, A., & CASSIS, G. (2012). Myrtlemiris, a new genus and new species of Australian plant bugs (Insecta: Heteroptera: Miridae): systematics, phylogeny and host associations. Systematic Entomology, 37(2), 305–331. Portico. https://doi.org/10.1111/j.1365-3113.2012.00621.x
https://doi.org/10.1111/j.1365-3113.2012.00621.x
CHENOWETH, L. B., FULLER, S., TIERNEY, S. M., PARK, Y. C., & SCHWARZ, M. P. (2008). Hasinamelissa: a new genus of allodapine bee from Madagascar revealed by larval morphology and DNA sequence data. Systematic Entomology, 33(4), 700–710. Portico. https://doi.org/10.1111/j.1365-3113.2008.00432.x
https://doi.org/10.1111/j.1365-3113.2008.00432.x
CHERMAN, M. A., MORÓN, M. A., & ALMEIDA, L. M. (2016). Phylogenetic relationships within <scp>D</scp>iplotaxini <scp>K</scp>irby (<scp>C</scp>oleoptera: <scp>M</scp>elolonthidae: <scp>M</scp>elolonthinae) with emphasis on <scp>L</scp>iogenys<scp>G</scp>uérin‐<scp>M</scp>éneville. Systematic Entomology, 41(4), 744–770. Portico. https://doi.org/10.1111/syen.12188
https://doi.org/10.1111/syen.12188
CHO, S., MITCHELL, A., MITTER, C., REGIER, J., MATTHEWS, M., & ROBERTSON, R. (2008). Molecular phylogenetics of heliothine moths (Lepidoptera: Noctuidae: Heliothinae), with comments on the evolution of host range and pest status. Systematic Entomology, 33(4), 581–594. Portico. https://doi.org/10.1111/j.1365-3113.2008.00427.x
https://doi.org/10.1111/j.1365-3113.2008.00427.x
CIGLIANO, M. M. (2006). Review of the South American genus Eurotettix Bruner (Orthoptera, Acridoidea, Melanoplinae). Systematic Entomology, 32(1), 176–195. Portico. https://doi.org/10.1111/j.1365-3113.2006.00353.x
https://doi.org/10.1111/j.1365-3113.2006.00353.x
CLARKE, D. J., & GREBENNIKOV, V. V. (2009). Monophyly of Euaesthetinae (Coleoptera: Staphylinidae): phylogenetic evidence from adults and larvae, review of austral genera, and new larval descriptions. Systematic Entomology, 34(2), 346–397. Portico. https://doi.org/10.1111/j.1365-3113.2009.00472.x
https://doi.org/10.1111/j.1365-3113.2009.00472.x
CLINE, A. R., SMITH, T. R., MILLER, K., MOULTON, M., WHITING, M., & AUDISIO, P. (2014). Molecular phylogeny of <scp>N</scp>itidulidae: assessment of subfamilial and tribal classification and formalization of the family <scp>C</scp>ybocephalidae (<scp>C</scp>oleoptera: <scp>C</scp>ucujoidea). Systematic Entomology, 39(4), 758–772. Portico. https://doi.org/10.1111/syen.12084
https://doi.org/10.1111/syen.12084
CONDAMINE, F. L., SOLDATI, L., RASPLUS, J., & KERGOAT, G. J. (2011). New insights on systematics and phylogenetics of MediterraneanBlapsspecies (Coleoptera: Tenebrionidae: Blaptini), assessed through morphology and dense taxon sampling. Systematic Entomology, 36(2), 340–361. Portico. https://doi.org/10.1111/j.1365-3113.2010.00567.x
https://doi.org/10.1111/j.1365-3113.2010.00567.x
CONFLITTI, I. M., SPIRONELLO, M., & CURRIE, D. C. (2012). Molecular phylogeny of the North American Simulium malyschevi‐group species (Diptera: Simuliidae). Systematic Entomology, 37(3), 571–577. Portico. https://doi.org/10.1111/j.1365-3113.2012.00629.x
https://doi.org/10.1111/j.1365-3113.2012.00629.x
CONTRERAS-RAMOS, A. (2011). Phylogenetic review of dobsonflies of the subfamily Corydalinae and the genus Corydalus Latreille (Megaloptera: Corydalidae). Zootaxa, 2862(1). https://doi.org/10.11646/zootaxa.2862.1.1
https://doi.org/10.11646/zootaxa.2862.1.1
CRANSTON, P. S., & KROSCH, M. N. (2015). DNA sequences and austral taxa indicate generic synonymy of Paratrichocladius Santos‐Abreu with Cricotopus Wulp (Diptera: Chironomidae). Systematic Entomology, 40(4), 719–732. Portico. https://doi.org/10.1111/syen.12130
https://doi.org/10.1111/syen.12130
CRANSTON, P. S., HARDY, N. B., MORSE, G. E., PUSLEDNIK, L., & McCLUEN, S. R. (2010). When molecules and morphology concur: the ‘Gondwanan’ midges (Diptera: Chironomidae). Systematic Entomology, 35(4), 636–648. Portico. https://doi.org/10.1111/j.1365-3113.2010.00531.x
https://doi.org/10.1111/j.1365-3113.2010.00531.x
CURLER, G. R., & MOULTON, J. K. (2012). Phylogeny of psychodid subfamilies (Diptera: Psychodidae) inferred from nuclear DNA sequences with a review of morphological evidence for relationships. Systematic Entomology, 37(3), 603–616. Portico. https://doi.org/10.1111/j.1365-3113.2012.00634.x
https://doi.org/10.1111/j.1365-3113.2012.00634.x
Cabezas, P., Sanmartin I., Paulay G., Macpherson E., & Machordom A. 2011. Deep under the sea: unraveling the evolutionary history of the deep-sea squat lobster Paramunida (Decapoda, Munididae). Evolution 66 (6): 1878-1896.
https://doi.org/10.1111/j.1558-5646.2011.01560.x
Cabrera L., Salazar G., Chase M., Mayo S., Bogner J., & Davila P. 2008. Phylogenetic relationships of aroids and duckweeds (Araceae) inferred from coding and non-coding plastid DNA. American Journal of Botany, 95: 1153-1165.
https://doi.org/10.3732/ajb.0800073
Cabrero-Sañudo, F.-J., & Zardoya, R. (2004). Phylogenetic relationships of Iberian Aphodiini (Coleoptera: Scarabaeidae) based on morphological and molecular data. Molecular Phylogenetics and Evolution, 31(3), 1084–1100. https://doi.org/10.1016/j.ympev.2003.10.019
https://doi.org/10.1016/j.ympev.2003.10.019
Cai, L., Cardoso, D., Tressel, L. G., Lee, C., Shrestha, B., Choi, I.-S., de Lima, H. C., de Queiroz, L. P., Ruhlman, T. A., Jansen, R. K., & Wojciechowski, M. F. (2024). Well-resolved phylogeny reveals multiple origins of keel flowers during the diversification of papilionoid legumes. https://doi.org/10.1101/2024.10.07.617045
https://doi.org/10.1101/2024.10.07.617045
Cai, T., Cibois, A., Alström, P., Moyle, R. G., Kennedy, J. D., Shao, S., Zhang, R., Irestedt, M., Ericson, P. G. P., Gelang, M., Qu, Y., Lei, F., & Fjeldså, J. (2019). Near-complete phylogeny and taxonomic revision of the world’s babblers (Aves: Passeriformes). Molecular Phylogenetics and Evolution, 130, 346–356. https://doi.org/10.1016/j.ympev.2018.10.010
https://doi.org/10.1016/j.ympev.2018.10.010
Cai, T., Wu, G., Sun, L., Zhang, Y., Peng, Z., Guo, Y., Liu, X., Pan, T., Chang, J., Sun, Z., & Zhang, B. (2021). Biogeography and diversification of Old World buntings (Aves: Emberizidae): radiation in open habitats. Journal of Avian Biology, 52(6). Portico. https://doi.org/10.1111/jav.02672
https://doi.org/10.1111/jav.02672
Callahan, M. S., & McPeek, M. A. (2016). Multi-locus phylogeny and divergence time estimates of Enallagma damselflies (Odonata: Coenagrionidae). Molecular Phylogenetics and Evolution, 94, 182–195. https://doi.org/10.1016/j.ympev.2015.08.013
https://doi.org/10.1016/j.ympev.2015.08.013
Callejas R., Davidson C., Jaramillo M., Smith J., Stevens A., & Tepe E. 2008. A phylogeny of the tropical genus Piper using ITS and the chloroplast intron psbJ-petA. Systematic Botany, 33(4), 647-660.
https://doi.org/10.1600/036364408786500244
Camara M., Palm M., Van berkum P., & O'neill N. 2002. Molecular phylogeny of Leptosphaeria and Phaeosphaeria. Mycologia, 94(4): 630-640.
https://doi.org/10.2307/3761714
Campillo, L. C., Oliveros, C. H., Sheldon, F. H., & Moyle, R. G. (2018). Genomic data resolve gene tree discordance in spiderhunters (Nectariniidae, Arachnothera). Molecular Phylogenetics and Evolution, 120, 151–157. https://doi.org/10.1016/j.ympev.2017.12.011
https://doi.org/10.1016/j.ympev.2017.12.011
Cao, J., Wang, Y., Guo, X., Wang, G., Li, W., & Murányi, D. (2021). Two Complete Mitochondrial Genomes From Leuctridae (Plecoptera: Nemouroidea): Implications for the Phylogenetic Relationships Among Stoneflies. Journal of Insect Science, 21(1). https://doi.org/10.1093/jisesa/ieab009
https://doi.org/10.1093/jisesa/ieab009
Cao, Y., Dietrich, C. H., Dmitriev, D. A., Kits, J. H., Xue, Q., & Zhang, Y. (2024). Phylogeny, biogeography and morphological evolution of the treehopper‐like leafhoppers (Hemiptera: Cicadellidae) Megophthalminae and Ulopinae. Systematic Entomology, 50(2), 296–308. Portico. https://doi.org/10.1111/syen.12655
https://doi.org/10.1111/syen.12655
Cardillo, Marcel, Olaf R. P. Bininda-Emonds, Elizabeth Boakes, Andy Purvis. 2004. A species-level phylogenetic supertree of marsupials. Journal of Zoology 264 (1): 11-31.
https://doi.org/10.1017/S0952836904005539
Cardinal, S., Buchmann, S. L., & Russell, A. L. (2018). The evolution of floral sonication, a pollen foraging behavior used by bees (Anthophila). Evolution, 72(3), 590–600. Portico. https://doi.org/10.1111/evo.13446
https://doi.org/10.1111/evo.13446
Cardinal, S., Straka, J., & Danforth, B. N. (2010). Comprehensive phylogeny of apid bees reveals the evolutionary origins and antiquity of cleptoparasitism. Proceedings of the National Academy of Sciences, 107(37), 16207–16211. https://doi.org/10.1073/pnas.1006299107
https://doi.org/10.1073/pnas.1006299107
Cardinal-McTeague, W. M., Sytsma, K. J., & Hall, J. C. (2016). Biogeography and diversification of Brassicales: A 103 million year tale. Molecular Phylogenetics and Evolution, 99, 204–224. doi:10.1016/j.ympev.2016.02.021
https://doi.org/10.1016/j.ympev.2016.02.021
Cardinal-McTeague, W. M., Wurdack, K. J., Sigel, E. M., & Gillespie, L. J. (2019). Seed size evolution and biogeography of Plukenetia (Euphorbiaceae), a pantropical genus with traditionally cultivated oilseed species. BMC Evolutionary Biology, 19(1). doi:10.1186/s12862-018-1308-9
https://doi.org/10.1186/s12862-018-1308-9
Cardoso D.B., Cavalcante de lima H., Sch?tz rodrigues R., Queiroz L.P., Pennington R., & Lavin M. 2012. The Bowdichia clade of Genistoid legumes: phylogenetic analysis of combined molecular (ITS, matK and trnL intron) and morphological data and a recircumscription of Diplotropis. Taxon, 61(5): 1074?1087.
http://www.ingentaconnect.com/content/iapt/tax/2012/00000061/00000005/art00012
Cardoso D.B., Queiroz L.P., Cavalcante de lima H., Suganuma E., Van den berg C., & Lavin M. 2013. A molecular phylogeny of the Vataireoid legumes underscores floral evolvability that is general to many early-branching papilionoid lineages. American Journal of Botany, 100(2): 403-421.
https://doi.org/10.3732/ajb.1200276
Cardoso D.B., Queiroz L.P., Pennington R., Cavalcante de lima H., Fonty E., Wojciechowski M., & Lavin M. 2012. Revisiting the phylogeny of papilionoid legumes: New insights from comprehensively sampled early-branching lineages. American Journal of Botany, 99(12): 1991-2013.
https://doi.org/10.3732/ajb.1200380
Cardoso, G. A., Cunha, V. A. S., Genevcius, B. C., Madeira‐Ott, T., Costa, B. M. de A., Rossoni, D. M., Thyssen, P. J., & Torres, T. T. (2025). Origins and Diversification of Myiasis Across Blowflies. Ecology and Evolution, 15(2). Portico. https://doi.org/10.1002/ece3.70993
https://doi.org/10.1002/ece3.70993
Cariaga, K. A., Pruski, J. F., Oviedo, R., Anderberg, A. A., Lewis, C. E., & Francisco-Ortega, J. (2008). Phylogeny and systematic position of Feddea (Asteraceae: Feddeeae): a taxonomically enigmatic and critically endangered genus endemic to Cuba. Systematic Botany, 33(1), 193-202.
https://doi.org/10.1600/036364408783887348
Carlos Montero-Castro, J., Delgado-Salinas, A., De Luna, E., & Eguiarte, L. E. (2006). Phylogenetic Analysisof Cestrum Section Habrothamnus (Solanaceae) Based on Plastid and Nuclear DNA Sequences. Systematic botany, 31(4), 843-850.
https://doi.org/10.1600/036364406779695979
Carrano M.T., Benson R.B., & Sampson S.D. 2012. The phylogeny of Tetanurae (Dinosauria: Theropoda). Journal of Systematic Palaeontology, 10(2): 211-300.
https://doi.org/10.1080/14772019.2011.630927
Cartwright, P., Evans N., Dunn C., Marques A., Miglietta M., & Collins A. 2008. Phylogenetics of Hydroidolina (Cnidaria, Hydrozoa). Journal of the Marine Biological Association of the United Kingdom 88 (8): 1663-1672.
https://doi.org/10.1017/S0025315408002257
Castellanos C., Steeves R.A., Bruneau A., & Lewis G.P. 2016. A settled sub-family for the Orphan tree: The phylogenetic position of the endemic Colombian genus Orphanodendron in the Leguminosae. Brittonia, .
No link provided! Try
Google Scholar or
CrossRef.org
Castillejos‐Lemus, D. E., Nieves‐Aldrey, J., Zhang, Y. M., Nicholls, J. A., Medianero, E., Rougon‐Cardoso, A., Stone, G. N., & Oyama, K. (2024). Phylogenomic insights and geographic distribution of the New World genus Amphibolips Reinhard (Hymenoptera: Cynipidae, Cynipini) using ultraconserved elements. Systematic Entomology, 50(2), 349–368. Portico. https://doi.org/10.1111/syen.12659
https://doi.org/10.1111/syen.12659
Catanach, T. A., Halley, M. R., & Pirro, S. (2024). Enigmas no longer: using ultraconserved elements to place several unusual hawk taxa and address the non-monophyly of the genusAccipiter(Accipitriformes: Accipitridae). Biological Journal of the Linnean Society. https://doi.org/10.1093/biolinnean/blae028
https://doi.org/10.1093/biolinnean/blae028
Catherine McFadden, Leen van Ofwegen, 2013, 'Molecular phylogenetic evidence supports a new family of octocorals and a new genus of Alcyoniidae (Octocorallia, Alcyonacea)', ZooKeys, vol. 346, pp. 59-83
https://doi.org/10.3897/zookeys.346.6270
Ceotto, P. C., & Mejdalani, G. (2004). Phylogenetic analysis of the Abana group of genera (Hemiptera: Cicadellidae: Cicadellinae: Proconiini). Systematic Entomology, 30(3), 480–496. Portico. https://doi.org/10.1111/j.1365-3113.2004.00280.x
https://doi.org/10.1111/j.1365-3113.2004.00280.x
Cerasale, David J., Roi Dor, David W. Winkler, Irby J. Lovette. 2012. Phylogeny of the Tachycineta genus of New World swallows: insights from complete mitochondrial genomes. Molecular Phylogenetics and Evolution 63 (1): 64-71.
https://doi.org/10.1016/j.ympev.2011.12.014
Chakrabarty, Prosanta, Matthew P. Davis, W. Leo Smith, Zachary H. Baldwin, John S. Sparks. 2011. Is sexual selection driving diversification of the bioluminescent ponyfishes (Teleostei: Leiognathidae)? Molecular Ecology 20 (13): 2818-2834.
https://doi.org/10.1111/j.1365-294X.2011.05112.x
Chambers, GK, Moeke, C, Steel, R, Trueman, JWH. 2009. Phylogenetic analysis of the 24 named albatross taxa based on full mitochondrial cytochrome b DNA sequences. Notornis 56 (2): 82-94.
http://notornis.osnz.org.nz/phylogenetic-analysis-24-named-albatross-taxa-based-full-mitochondrial-cytochrome-b-dna-sequences
Chamorro, M. L., & Holzenthal, R. W. (2011). Phylogeny of Polycentropodidae Ulmer, 1903 (Trichoptera:Annulipalpia:Psychomyioidea) inferred from larval, pupal and adult characters. Invertebrate Systematics, 25(3), 219. https://doi.org/10.1071/is10024
https://doi.org/10.1071/is10024
Chan, B. K. K., Dreyer, N., Gale, A. S., Glenner, H., Ewers-Saucedo, C., Pérez-Losada, M., … Høeg, J. T. (2021). The evolutionary diversity of barnacles, with an updated classification of fossil and living forms. Zoological Journal of the Linnean Society. doi:10.1093/zoolinnean/zlaa160
https://doi.org/10.1093/zoolinnean/zlaa160
Chandra A., & Huff D. 2007. Salmacisia, a new genus of Tilletiales: reclassification of Tilletia buchloëana causing induced hermaphroditism in buffalograss. Mycologia, 100(1): 81-93.
https://doi.org/10.3852/mycologia.100.1.81
Chang E.S., Neuhof M., Rubinstein N., Diamant A., Philippe H., Huchon D., & Cartwright P. 2015. Genomic insights into the evolutionary origin of Myxozoa within Cnidaria. Proceedings of the National Academy of Sciences of the United States of America, .
https://doi.org/10.1073/pnas.1511468112
Chang, H., & Huang, Y. (2016). The complete mitochondrial genome of the Hieroglyphus tonkinensis (Orthoptera: Acrididae). Mitochondrial DNA Part B, 1(1), 534–535. https://doi.org/10.1080/23802359.2016.1197067
https://doi.org/10.1080/23802359.2016.1197067
Charlton N., Craven K., Afkhami M., Hall B., Swoboda G., Ghimire S.R., & Young C. 2012. Genetic diversity in epichloid endophytes of Bromus laevipes provides evidence for independent hybridization events. Molecular Ecology, .
No link provided! Try
Google Scholar or
CrossRef.org
Charlton, Nikki D., Kelly D. Craven, Shipra Mittal, Andrew A. Hopkins, and Carolyn A. Young. "Epichloë canadensis, a new interspecific epichloid hybrid symbiotic with Canada wildrye (Elymus canadensis)." Mycologia 104, no. 5 (2012): 1187-1199.
https://doi.org/10.3852/11-403
Charry, M. P., Wells, J. B. J., Keesing, V., Smith, K. F., Stringer, T. J., & Tremblay, L. A. (2018). Quinquelaophonte Aurantius sp. nov., a new harpacticoid species (Copepoda: Harpacticoida: Laophontidae: Quinquelaophonte) from New Zealand. New Zealand Journal of Zoology, 46(4), 301–320. https://doi.org/10.1080/03014223.2018.1548496
https://doi.org/10.1080/03014223.2018.1548496
Chatzimanolis, S. (2005). Phylogeny of the neotropical rove beetle genus Nordus (Coleoptera: Staphylinidae) with a special reference to the evolution of coloration and secondary sexual characters. Systematic Entomology, 30(2), 267–280. Portico. https://doi.org/10.1111/j.1365-3113.2004.00274.x
https://doi.org/10.1111/j.1365-3113.2004.00274.x
Chaverri P., Gazis R., & Samuels G.J. 2011. Trichoderma amazonicum, a new endophytic species on Hevea brasiliensis and H. guianensis from the Amazon basin. Mycologia103 (1): 139-151 .
https://doi.org/10.3852/10-078
Chaverri P., Samuels G., & Stewart E. 2000. Hypocrea virens sp. nov., the teleomorph of Trichoderma virens. Mycologia, 93(6): 1113-1124.
https://doi.org/10.2307/3761672
Chaverri, Priscila, Joseph F. Bischoff, Harry C. Evans, and Kathie T. Hodge. "Regiocrella, a new entomopathogenic genus with a pycnidial anamorph and its phylogenetic placement in the Clavicipitaceae." Mycologia 97, no. 6 (2005): 1225-1237.
https://doi.org/10.3852/mycologia.97.6.1225
Chaverri, Priscila, and Gary J. Samuels. "Evolution of habitat preference and nutrition mode in a cosmopolitan fungal genus with evidence of interkingdom host jumps and major shifts in ecology." Evolution 67.10 (2013): 2823-2837.
https://doi.org/10.1111/evo.12169
Chaves, A. V., Vasconcelos, M. F., Freitas, G. H. S., & Santos, F. R. (2019). Vicariant events in the montane hummingbird genera Augastes and Schistes in South America. Ibis, 162(3), 1060–1067. Portico. https://doi.org/10.1111/ibi.12777
https://doi.org/10.1111/ibi.12777
Chaves, Jaime A., José R. Hidalgo, John Klicka. 2013. Biogeography and evolutionary history of the Neotropical genus Saltator (Aves: Thraupini). Journal of Biogeography 40 (11): 2180-2190.
https://doi.org/10.1111/jbi.12150
Che, L., Zhang, P., Deng, S., Escalona, H. E., Wang, X., Li, Y., Pang, H., Vandenberg, N., Ślipiński, A., Tomaszewska, W., & Liang, D. (2021). New insights into the phylogeny and evolution of lady beetles (Coleoptera: Coccinellidae) by extensive sampling of genes and species. Molecular Phylogenetics and Evolution, 156, 107045. https://doi.org/10.1016/j.ympev.2020.107045
https://doi.org/10.1016/j.ympev.2020.107045
Che, Y., Wang, D., Shi, Y., Du, X., Zhao, Y., Lo, N., & Wang, Z. (2016). A global molecular phylogeny and timescale of evolution for Cryptocercus woodroaches. Molecular Phylogenetics and Evolution, 98, 201–209. https://doi.org/10.1016/j.ympev.2016.02.005
https://doi.org/10.1016/j.ympev.2016.02.005
Che-Huang Tung, Yu-Rong Cheng, Ching-Yi Lin, Ju-Shey Ho, Chih-Horng Kuo, Jr-Kai Yu, Yi-Hsien Su, 2014, 'A New Copepod With Transformed Body Plan and Unique Phylogenetic Position Parasitic in the Acorn Worm Ptychodera flava', The Biological Bulletin, vol. 226, no. 1, pp. 69-80
https://doi.org/10.1086/bblv226n1p69
Chen J., Cui B., & Dai Y.C. 2016. Global diversity and molecular systematics of Wrightoporia s.l. (Russulales, Basidiomycota). Persoonia, 37: 21-36.
https://doi.org/10.3767/003158516X689666
Chen X. 1994. "Phylogenetic studies of the amblycipitid catfishes (Teleostei, Siluriformes) with species accounts." In: , eds. Phylogenetic studies of the amblycipitid catfishes (Teleostei, Siluriformes) with species accounts. pp. iii-471. , UMI Dissertation Services.
No link provided! Try
Google Scholar or
CrossRef.org
Chen, B., Butlin, R. K., & Harbach, R. E. (2003). Molecular phylogenetics of the Oriental members of
the Myzomyia Series of Anopheles subgenus Cellia (Diptera: Culicidae) inferred from nuclear and mitochondrial DNA sequences. Systematic Entomology, 28(1), 57–69. Portico. https://doi.org/10.1046/j.1365-3113.2003.00200.x
https://doi.org/10.1046/j.1365-3113.2003.00200.x
Chen, B., Liu, Y., Lu, X., Jiang, D., Wang, X., Zhang, Q., Yang, G., & Yang, X. (2023). Complete mitochondrial genome of Ctenophthalmus quadratus and Stenischia humilis in China provides insights into fleas phylogeny. Frontiers in Veterinary Science, 10. https://doi.org/10.3389/fvets.2023.1255017
https://doi.org/10.3389/fvets.2023.1255017
Chen, D., Hosner, P. A., Dittmann, D. L., O’Neill, J. P., Birks, S. M., Braun, E. L., & Kimball, R. T. (2021). Divergence time estimation of Galliformes based on the best gene shopping scheme of ultraconserved elements. BMC Ecology and Evolution, 21(1). https://doi.org/10.1186/s12862-021-01935-1
https://doi.org/10.1186/s12862-021-01935-1
Chen, S., Li, F.-H., Lan, X.-E., & You, P. (2016). The complete mitochondrial genome of Pycnarmon lactiferalis (Lepidoptera: Crambidae). Mitochondrial DNA Part B, 1(1), 638–639. https://doi.org/10.1080/23802359.2016.1214551
https://doi.org/10.1080/23802359.2016.1214551
Chen, Wei-Jen, Sébastien Lavoué, and Richard L. Mayden. 2013. Evolutionary origin and early biogeography of otophysan fishes (Ostariophysi: Teleostei). Evolution 67 (8): 2218–2239.
https://doi.org/10.1111/evo.12104
Chen, Y., Giles, K. L., & Greenstone, M. H. (2002). Molecular Evidence for a Species Complex in the Genus <I>Aphelinus</I> (Hymenoptera: Aphelinidae), with Additional Data on Aphidiine Phylogeny (Hymenoptera: Braconidae). Annals of the Entomological Society of America, 95(1), 29–34. https://doi.org/10.1603/0013-8746(2002)095[0029:mefasc]2.0.co;2
https://doi.org/10.1603/0013-8746(2002)095[0029:mefasc]2.0.co;2
Chen, Y., Shi, X., Li, D., Chen, B., Zhang, P., Wu, N., & Xu, Z. (2016). The complete nucleotide sequence of the mitochondrial genome of Calliphora chinghaiensis (Diptera: Calliphoridae). Mitochondrial DNA Part B, 1(1), 397–398. https://doi.org/10.1080/23802359.2016.1174088
https://doi.org/10.1080/23802359.2016.1174088
Chen, Y., Xiao, H., Fu, J., & Huang, D.-W. (2004). A molecular phylogeny of eurytomid wasps inferred from DNA sequence data of 28S, 18S, 16S, and COI genes. Molecular Phylogenetics and Evolution, 31(1), 300–307. https://doi.org/10.1016/s1055-7903(03)00282-3
https://doi.org/10.1016/s1055-7903(03)00282-3
Chen, Z., Zhou, S. Y., Ye, D., Chen, Y., & Lu, C. (2013). Molecular Phylogeny of the Ant Subfamily Formicinae (Hymenoptera, Formicidae) from China Based on Mitochondrial Genes. Sociobiology, 60(2), 135–144. https://doi.org/10.13102/sociobiology.v60i2.135-144
https://doi.org/10.13102/sociobiology.v60i2.135-144
Chen, Z.-T. (2022). Comparative mitogenomic analysis of two earwigs (Insecta, Dermaptera) and the preliminary phylogenetic implications. ZooKeys, 1087, 105–122. https://doi.org/10.3897/zookeys.1087.78998
https://doi.org/10.3897/zookeys.1087.78998
Chen, Z.-T., Lü, L., Lu, M.-X., & Du, Y.-Z. (2017). Comparative mitogenomic analysis of Aposthonia borneensis and Aposthonia japonica (Embioptera: Oligotomidae) reveals divergent evolution of webspinners. Scientific Reports, 7(1). https://doi.org/10.1038/s41598-017-09003-9
https://doi.org/10.1038/s41598-017-09003-9
Chen, Z.-T., Zhao, M.-Y., Xu, C., & Du, Y.-Z. (2018). Molecular phylogeny of Systellognatha (Plecoptera: Arctoperlaria) inferred from mitochondrial genome sequences. International Journal of Biological Macromolecules, 111, 542–547. https://doi.org/10.1016/j.ijbiomac.2018.01.065
https://doi.org/10.1016/j.ijbiomac.2018.01.065
Cheng-Wei Chen, Carl J. Rothfels, Andi Maryani A. Mustapeng, Markus Gubilil, Dirk Nikolaus Karger, Michael Kessler, Yao-Moan Huang, 2017, 'End of an enigma: Aenigmopteris belongs in Tectaria (Tectariaceae: Polypodiopsida)', Journal of Plant Research, vol. 131, no. 1, pp. 67-76
https://doi.org/10.1007/s10265-017-0966-9
Chesser, R. Terry, Carol K. L. Yeung, Cheng-Te Yao, Xiu-Hua Tian, Shou-Hsien Li. 2010. Molecular phylogeny of the spoonbills (Aves: Threskiornithidae) based on mitochondrial DNA. Zootaxa 2603: 53-60.
http://www.mapress.com/zootaxa/2010/f/z02603p060f.pdf
Chiotis, M., Jermiin, L. S., & Crozier, R. H. (2000). A Molecular Framework for the Phylogeny of the Ant Subfamily Dolichoderinae. Molecular Phylogenetics and Evolution, 17(1), 108–116. https://doi.org/10.1006/mpev.2000.0821
https://doi.org/10.1006/mpev.2000.0821
Chirivi-salomon J.S., Danies G., Restrepo S., & Sanjuan T.I. 2015. Lecanicillium sabanense sp. nov. (Cordycipitaceae) a new fungal entomopathogen of coccids. Phytotaxa, 234(1): 063-074.
https://doi.org/10.11646/phytotaxa.234.1.4
Cho, S., Zwick A., Regier J., Mitter C., Cummings M.P., Yao J., Du Z., Zhao H., Kawahara A.Y., Weller S.J., Davis D.R., Baixeras J., Brown J.W., & Parr C. 2011. Can deliberately incomplete gene sample augmentation improve a phylogeny estimate for the advanced moths and butterflies (Hexapoda: Lepidoptera)?. Systematic Biology 60 (6): 782-796.
https://doi.org/10.1093/sysbio/syr079
Chodon Sass, William J.D. Iles, Craig F. Barrett, Selena Y. Smith, Chelsea D. Specht, 2016, 'Revisiting the Zingiberales: using multiplexed exon capture to resolve ancient and recent phylogenetic splits in a charismatic plant lineage', PeerJ, vol. 4, p. e1584
https://doi.org/10.7717/peerj.1584
Chris J. Law, Graham J. Slater, Rita S. Mehta, 2017, 'Lineage Diversity and Size Disparity in Musteloidea: Testing Patterns of Adaptive Radiation Using Molecular and Fossil-Based Methods', Systematic Biology
https://doi.org/10.1093/sysbio/syx047
Christin, P.-A., Sage, T. L., Edwards, E. J., gburn, R. M., Khoshravesh, R., & Sage, R. F. 2011. Complex evolutionary transitions and the significance of c(3)-c(4) intermediate forms of photosynthesis in Molluginaceae. Evolution 65: 643-660.
https://doi.org/10.1111/j.1558-5646.2010.01168.x
Christina D. Moon, Christopher O. Miles, Ulla Jarlfors, Christopher L. Schardl, 2002, 'The Evolutionary Origins of Three New Neotyphodium Endophyte Species from Grasses Indigenous to the Southern Hemisphere', Mycologia, vol. 94, no. 4, p. 694
https://doi.org/10.2307/3761720
Chu, H., Wu, Z., Zhang, H., Li, C., Wang, G., Zhou, M., & Zhao, T. (2016). Sequencing and analysis of the complete mitochondrial genome of Culex tritaeniorhynchus (Dipera: Culicidae) in China. Mitochondrial DNA Part B, 1(1), 365–366. https://doi.org/10.1080/23802359.2016.1168719
https://doi.org/10.1080/23802359.2016.1168719
Chuan Ma, Yeying Wang, Chao Wu, Le Kang, Chunxiang Liu, 2014, 'The compact mitochondrial genome of Zorotypus medoensis provides insights into phylogenetic position of Zoraptera', BMC Genomics, vol. 15, no. 1, p. 1156
https://doi.org/10.1186/1471-2164-15-1156
Chung, K. S., Hipp, A. L., & Roalson, E. H. (2012). Chromosome number evolves independently of genome size in a clade with nonlocalized centromeres (Carex: Cyperaceae). Evolution, 66(9), 2708-2722.
https://doi.org/10.1111/j.1558-5646.2012.01624.x.
Cibois, Alice, Jean-Claude Thibault, Céline Bonillo, Christopher E. Filardi, Dick Watling, Eric Pasquet. 2014. Phylogeny and biogeography of the fruit doves (Aves: Columbidae). Molecular Phylogenetics and Evolution 70: 442-453.
https://doi.org/10.1016/j.ympev.2013.08.019
Cicero, C., Mason, N. A., Benedict, L., & Rising, J. D. (2020). Behavioral, morphological, and ecological trait evolution in two clades of New World Sparrows (AimophilaandPeucaea, Passerellidae). PeerJ, 8, e9249. Portico. https://doi.org/10.7717/peerj.9249
https://doi.org/10.7717/peerj.9249
Claramunt, S., Derryberry E.P., Brumfield R., and Remsen J. 2012. Ecological opportunity and diversification in a continental radiation of birds: climbing adaptations and cladogenesis in the Furnariidae. American Naturalist 179 (5): 649-666.
https://doi.org/10.1086/664998
Claramunt, S., Sheard, C., Brown, J. W., Cortés-Ramírez, G., Cracraft, J., Su, M. M., Weeks, B. C., & Tobias, J. A. (2025). A new time tree of birds reveals the interplay between dispersal, geographic range size, and diversification. Current Biology, 35(16), 3883-3895.e4. https://doi.org/10.1016/j.cub.2025.07.004
https://doi.org/10.1016/j.cub.2025.07.004
Claramunt, Santiago, Joel Cracraft. 2015. A new time tree reveals Earth historys imprint on the evolution of modern birds. Science Advances 1 (11): e1501005-e1501005
https://doi.org/10.1126/sciadv.1501005
Clark J., Wagner W., & Roalson E. 2009. Patterns of diversification and ancestral range reconstruction in the Southeast Asian-Pacific angiosperm lineage Cyrtandra (Gesneriaceae). Molecular Phylogenetics and Evolution, 53(3): 982-994.
https://doi.org/10.1016/j.ympev.2009.09.002
Clarkson, J. J., Knapp, S., Garcia, V. F., Olmstead, R. G., Leitch, A. R., & Chase, M. W. (2004). Phylogenetic relationships in Nicotiana (Solanaceae) inferred from multiple plastid DNA regions. Molecular phylogenetics and evolution, 33(1), 75-90.
https://doi.org/10.1016/j.ympev.2004.05.002
Clement W., & Donoghue M. 2011. Dissolution of Viburnum section Megalotinus (Adoxaceae) of Southeast Asia and its implications for morphological evolution and biogeography. International Journal of Plant Sciences, 172(4): 559-573.
https://doi.org/10.1086/658927
Clement, R. A., Saxton, N. A., Standring, S., Arnold, P. R., Johnson, K. K., Bybee, D. R., & Bybee, S. M. (2021). Phylogeny, migration and geographic range size evolution ofAnaxdragonflies (Anisoptera: Aeshnidae). Zoological Journal of the Linnean Society, 194(3), 858–878. https://doi.org/10.1093/zoolinnean/zlab046
https://doi.org/10.1093/zoolinnean/zlab046
Clements, J. F., P. C. Rasmussen, T. S. Schulenberg, M. J. Iliff, T. A. Fredericks, J. A. Gerbracht, D. Lepage, A. Spencer, S. M. Billerman, B. L. Sullivan, M. Smith, and C. L. Wood. 2024. The eBird/Clements checklist of Birds of the World: v2024. Downloaded from https://www.birds.cornell.edu/clementschecklist/download/
https://www.birds.cornell.edu/clementschecklist/introduction/updateindex/october-2024/2024-citation-checklist-downloads/
Clouse, R. M., Janda, M., Blanchard, B., Sharma, P., Hoffmann, B. D., Andersen, A. N., Czekanski‐Moir, J. E., Krushelnycky, P., Rabeling, C., Wilson, E. O., Economo, E. P., Sarnat, E. M., General, D. M., Alpert, G. D., & Wheeler, W. C. (2014). Molecular phylogeny of<scp>I</scp>ndo‐<scp>P</scp>acific carpenter ants (<scp>H</scp>ymenoptera:<scp>F</scp>ormicidae,<scp>C</scp>amponotus) reveals waves of dispersal and colonization from diverse source areas. Cladistics, 31(4), 424–437. Portico. https://doi.org/10.1111/cla.12099
https://doi.org/10.1111/cla.12099
Coelho G., Silveira A.D., Antoniolli Z.I., & Yurchenko E. 2016. Tropicoporus stratificans sp. nov. (Hymenochaetales, Basidiomycota) from southern Brazil. Phytotaxa, 245(2): 144-152.
https://doi.org/10.11646/phytotaxa.245.2.5
Coelho, B. W. T. (2004). A review of the bee genus Augochlorella (Hymenoptera: Halictidae: Augochlorini). Systematic Entomology, 29(3), 282–323. Portico. https://doi.org/10.1111/j.0307-6970.2004.00243.x
https://doi.org/10.1111/j.0307-6970.2004.00243.x
Coetzee M., Wingfield B., Bloomer P., Ridley G., & Wingfield M.J. 2003. Molecular identification and phylogeny of Armillaria isolates from South America and Indo-Malaysia. Mycologia, 95(2): 285-293.
https://doi.org/10.2307/3762039
Coeur d’acier, A., Jousselin, E., Martin, J.-F., & Rasplus, J.-Y. (2007). Phylogeny of the Genus Aphis Linnaeus, 1758 (Homoptera: Aphididae) inferred from mitochondrial DNA sequences. Molecular Phylogenetics and Evolution, 42(3), 598–611. https://doi.org/10.1016/j.ympev.2006.10.006
https://doi.org/10.1016/j.ympev.2006.10.006
Cognato, A. I., Taft, W., Osborn, R. K., & Rubinoff, D. (2022). Multi‐gene phylogeny of North American clear‐winged moths (Lepidoptera: Sesiidae): a foundation for future evolutionary study of a speciose mimicry complex. Cladistics, 39(1), 1–17. Portico. https://doi.org/10.1111/cla.12515
https://doi.org/10.1111/cla.12515
Cohen, C. M., Noble, K., Jeffrey Cole, T., & Brewer, M. S. (2021). The phylogeny of robber flies (Asilidae) inferred from ultraconserved elements. Systematic Entomology, 46(4), 812–826. Portico. https://doi.org/10.1111/syen.12490
https://doi.org/10.1111/syen.12490
Colangelo, P., A.A. Bannikova, B. Kryštufek, V.S. Lebedev, F. Annesi, E. Capanna, A. Loy. 2010. Molecular systematics and evolutionary biogeography of the genus Talpa (Soricomorpha: Talpidae). Molecular Phylogenetics and Evolution 55 (2): 372-380.
https://doi.org/10.1016/j.ympev.2010.01.038
Collado, Javier, Gonzalo Platas, Gerald F. Bills, Ángela Basilio, Francisca Vicente, J. Rubén Tormo, Pilar Hernández, M. Teresa Díez, and Fernando Peláez. "Studies on Morinia: Recognition of Morinia longiappendiculata sp. nov. as a new endophytic fungus, and a new circumscription of Morinia pestalozzioides." Mycologia 98, no. 4 (2006): 616-627.
https://doi.org/10.3852/mycologia.98.4.616
Collevatti, R., Colli G., Giugliano L., Werneck F., & Werneck F. 2008. Phylogeny, biogeography and evolution of clutch size in South American lizards of the genus Kentropyx (Squamata: Teiidae). Molecular Ecology 18 (2): 262-278.
https://doi.org/10.1111/j.1365-294X.2008.03999.x
Colston, T. J., Kulkarni, P., Jetz, W., & Pyron, R. A. (2020). Phylogenetic and spatial distribution of evolutionary diversification, isolation, and threat in turtles and crocodilians (non-avian archosauromorphs). BMC Evolutionary Biology, 20(1). https://doi.org/10.1186/s12862-020-01642-3
https://doi.org/10.1186/s12862-020-01642-3
Condamine, F. L., Silva-Brandão, K. L., Kergoat, G. J., & Sperling, F. A. (2012). Biogeographic and diversification patterns of Neotropical Troidini butterflies (Papilionidae) support a museum model of diversity dynamics for Amazonia. BMC Evolutionary Biology, 12(1), 82. https://doi.org/10.1186/1471-2148-12-82
https://doi.org/10.1186/1471-2148-12-82
Cooke D., Drenth A., Duncan J., Wagels G., & Brasier C. 2000. A molecular phylogeny of Phytophthora and related Oomycetes. Fungal Genetics and Biology, 30(1): 17-32.
https://doi.org/10.1006/fgbi.2000.1202
Coppard S.E., & Lessios H.A. 2017. Phylogeography of the sand dollar genus Encope: implications regarding the Central American Isthmus and rates of molecular evolution. Scientific Reports, .
https://doi.org/10.1038/s41598-017-11875-w
Corl, Ammon, Hans Ellegren. 2013. Sampling strategies for species trees: The effects on phylogenetic inference of the number of genes, number of individuals, and whether loci are mitochondrial, sex-linked, or autosomal. Molecular Phylogenetics and Evolution 67 (2): 358-366
https://doi.org/10.1016/j.ympev.2013.02.002
Corrinne E. Grover, Joseph P. Gallagher, Josef J. Jareczek, Justin T. Page, Joshua A. Udall, Michael A. Gore, Jonathan F. Wendel, 2015, 'Re-evaluating the phylogeny of allopolyploid Gossypium L.', Molecular Phylogenetics and Evolution, vol. 92, pp. 45-52
https://doi.org/10.1016/j.ympev.2015.05.023
Cosandey, V., Konvička, O., & Toussaint, E. F. A. (2024). Legacy molecular phylogenetics suggests restricting the concept of Melandryidae and resurrecting Osphyidae (Coleoptera: Tenebrionoidea). Arthropod Systematics & Phylogeny, 82, 621–627. https://doi.org/10.3897/asp.82.e131738
https://doi.org/10.3897/asp.82.e131738
Costea M., Garcia I., Docksteder K., & Stefanovic S. 2013. More problems despite bigger flowers: systematics of Cuscuta tinctoria clade (subgenus Grammica, Convolvulaceae) with description of six new species. Systematic Botany.
https://doi.org/10.1600/036364413x674887
Couch B., & Kohn L. 2002. A multilocus gene genealogy concordant with host preference indicates segregation of a new species, Magnaporthe oryzae, from M. grisea. Mycologia, 94(4): 683-693.
https://doi.org/10.2307/3761719
Coughenour J., Simmons M., Lombardi J., & Cappa J. 2010. Phylogeny of Celastraceae subfamily Salacioideae and tribe Lophopetaleae Inferred from Morphological Characters and Nuclear and Plastid Genes. Systematic Botany, 35(2): 358-367
https://doi.org/10.1600/036364410791638289
Couri, M. S., & Pont, A. C. (2000). Cladistic analysis of Coenosiini (Diptera: Muscidae: Coenosiinae). Systematic Entomology, 25(3), 373–392. Portico. https://doi.org/10.1046/j.1365-3113.2000.00125.x
https://doi.org/10.1046/j.1365-3113.2000.00125.x
Cox, Cymon J., Bernard Goffinet, Norman J. Wickett, Sandra B. Boles, and A. Jonathan Shaw. 2010. Moss diversity: a molecular phylogenetic analysis of genera. Phytotaxa 9: 175-195.
No link provided! Try
Google Scholar or
CrossRef.org
Crampton-Platt, A., Timmermans, M. J. T. N., Gimmel, M. L., Kutty, S. N., Cockerill, T. D., Vun Khen, C., & Vogler, A. P. (2015). Soup to Tree: The Phylogeny of Beetles Inferred by Mitochondrial Metagenomics of a Bornean Rainforest Sample. Molecular Biology and Evolution, 32(9), 2302–2316. https://doi.org/10.1093/molbev/msv111
https://doi.org/10.1093/molbev/msv111
Crawford, N. G., B. C. Faircloth, J. E. McCormack, R. T. Brumfield, K. Winker, T. C. Glenn. 2012. More than 1000 ultraconserved elements provide evidence that turtles are the sister group of archosaurs. Biology Letters 8 (5): 783-786.
https://doi.org/10.1098/rsbl.2012.0331
Crous P., Decock C., & Schoch C.L. 2001. Xenocylindrocladium guianense and X. subverticillatum, two new species of hyphomycetes from plant debris in the tropics. Mycoscience, 42: 559-566.
https://doi.org/10.1007/BF02460955
Crous P., Groenewald J., & Hill C. 2002. Cylindrocladium pseudonaviculatum sp. nov. from New Zealand, and new Cylindrocladium records from Vietnam. Sydowia, 54: 23-33.
No link provided! Try
Google Scholar or
CrossRef.org
Crous P., Groenewald J., Risede J., Simoneau P., & Hyde K. 2006. Calonectria species and their Cylindrocladium anamorphs: species with clavate vesicles. Studies in Mycology, 55(1): 213-226.
https://doi.org/10.3114/sim.55.1.213
Cruaud, A., Delvare, G., Nidelet, S., Sauné, L., Ratnasingham, S., Chartois, M., Blaimer, B. B., Gates, M., Brady, S. G., Faure, S., van Noort, S., Rossi, J., & Rasplus, J. (2020). Ultra‐Conserved Elements and morphology reciprocally illuminate conflicting phylogenetic hypotheses in Chalcididae (Hymenoptera, Chalcidoidea). Cladistics, 37(1), 1–35. Portico. https://doi.org/10.1111/cla.12416
https://doi.org/10.1111/cla.12416
Cruaud, A., Jabbour‐Zahab, R., Genson, G., Cruaud, C., Couloux, A., Kjellberg, F., Van Noort, S., & Rasplus, J. (2010). Laying the foundations for a new classification of Agaonidae (Hymenoptera: Chalcidoidea), a multilocus phylogenetic approach. Cladistics, 26(4), 359–387. Portico. https://doi.org/10.1111/j.1096-0031.2009.00291.x
https://doi.org/10.1111/j.1096-0031.2009.00291.x
Cruaud, A., Rasplus, J., Zhang, J., Burks, R., Delvare, G., Fusu, L., Gumovsky, A., Huber, J. T., Janšta, P., Mitroiu, M., Noyes, J. S., van Noort, S., Baker, A., Böhmová, J., Baur, H., Blaimer, B. B., Brady, S. G., Bubeníková, K., Chartois, M., … Heraty, J. M. (2023). The Chalcidoidea bush of life: evolutionary history of a massive radiation of minute wasps. Cladistics, 40(1), 34–63. Portico. https://doi.org/10.1111/cla.12561
https://doi.org/10.1111/cla.12561
Cryan J. 2004. Molecular Phylogeny of Cicadomorpha (Insecta: Hemiptera: Cicadoidea, Cercopoidea, and Membracoidea): Adding Evidence to the Controversy. Systematic Entomology, null.
No link provided! Try
Google Scholar or
CrossRef.org
Cryan, J., Wiegmann B., Deitz L., Dietrich C., & Whiting M. 2004. Treehopper trees: phylogeny of Membracidae (Hemiptera: Cicadomorpha: Membracoidea) based on molecules and morphology. Systematic Entomology 29 (4): 441-454.
https://doi.org/10.1111/j.0307-6970.2004.00260.x
Cucini, C., Fanciulli, P. P., Frati, F., Convey, P., Nardi, F., & Carapelli, A. (2020). Re-Evaluating the Internal Phylogenetic Relationships of Collembola by Means of Mitogenome Data. Genes, 12(1), 44. https://doi.org/10.3390/genes12010044
https://doi.org/10.3390/genes12010044
Cunha, R. L., Verdú, J. R., Lobo, J. M., & Zardoya, R. (2011). Ancient origin of endemic Iberian earth-boring dung beetles (Geotrupidae). Molecular Phylogenetics and Evolution, 59(3), 578–586. https://doi.org/10.1016/j.ympev.2011.03.028
https://doi.org/10.1016/j.ympev.2011.03.028
Cushing, Paula E., Matthew R. Graham, Lorenzo Prendini, Jack O. Brookhart. 2015. A multilocus molecular phylogeny of the endemic North American camel spider family Eremobatidae (Arachnida: Solifugae). Molecular Phylogenetics and Evolution 92: 280-293
https://doi.org/10.1016/j.ympev.2015.07.001
Cusimano N., Bogner J., Mayo S., Wong S.Y., Hesse M., Hetterscheid W., Keating R.C., & French J. 2011. Relationships within the Araceae: comparison of morphological patterns with molecular phylogenies. American Journal of Botany, 98(4), 654-668.
https://doi.org/10.3732/ajb.1000158
DARWELL, C. T., RIVERS, D. M., & ALTHOFF, D. M. (2016). RAD‐seq phylogenomics recovers a well‐resolved phylogeny of a rapid radiation of mutualistic and antagonistic yucca moths. Systematic Entomology, 41(3), 672–682. Portico. https://doi.org/10.1111/syen.12185
https://doi.org/10.1111/syen.12185
DE JONG, H., & CILIBERTI, P. (2014). How cold‐adapted flightless flies dispersed over the northern hemisphere: phylogeny and biogeography of the snow fly genus Chionea<scp>D</scp>alman (<scp>D</scp>iptera: <scp>L</scp>imoniidae). Systematic Entomology, 39(3), 563–589. Portico. https://doi.org/10.1111/syen.12075
https://doi.org/10.1111/syen.12075
DIJKSTRA, K. B., KALKMAN, V. J., DOW, R. A., STOKVIS, F. R., & VAN TOL, J. (2013). Redefining the damselfly families: a comprehensive molecular phylogeny of <scp>Z</scp>ygoptera (<scp>O</scp>donata). Systematic Entomology, 39(1), 68–96. Portico. https://doi.org/10.1111/syen.12035
https://doi.org/10.1111/syen.12035
DJERNÆS, M., KLASS, K., PICKER, M. D., & DAMGAARD, J. (2011). Phylogeny of cockroaches (Insecta, Dictyoptera, Blattodea), with placement of aberrant taxa and exploration of out‐group sampling. Systematic Entomology, 37(1), 65–83. Portico. https://doi.org/10.1111/j.1365-3113.2011.00598.x
https://doi.org/10.1111/j.1365-3113.2011.00598.x
DOORENWEERD, C., VAN NIEUKERKEN, E. J., & HOARE, R. J. B. (2016). Phylogeny, classification and divergence times of pygmy leaf‐mining moths (<scp>L</scp>epidoptera: <scp>N</scp>epticulidae): the earliest lepidopteran radiation on <scp>A</scp>ngiosperms? Systematic Entomology, 42(1), 267–287. Portico. https://doi.org/10.1111/syen.12212
https://doi.org/10.1111/syen.12212
DRESSLER, C., GE, S., & BEUTEL, R. G. (2011). Is Meru a specialized noterid (Coleoptera, Adephaga)? Systematic Entomology, 36(4), 705–712. Portico. https://doi.org/10.1111/j.1365-3113.2011.00585.x
https://doi.org/10.1111/j.1365-3113.2011.00585.x
DUBITZKY, A. (2007). Phylogeny of the World Anthophorini (Hymenoptera: Apoidea: Apidae). Systematic Entomology, 32(4), 585–600. Portico. https://doi.org/10.1111/j.1365-3113.2007.00397.x
https://doi.org/10.1111/j.1365-3113.2007.00397.x
DUMONT, H. J., VIERSTRAETE, A., & VANFLETEREN, J. R. (2010). A molecular phylogeny of the Odonata (Insecta). Systematic Entomology, 35(1), 6–18. Portico. https://doi.org/10.1111/j.1365-3113.2009.00489.x
https://doi.org/10.1111/j.1365-3113.2009.00489.x
DYER, N., LAWTON, S., RAVEL, S., CHOI, K., LEHANE, M., ROBINSON, A., OKEDI, L., HALL, M., SOLANO, P., & DONNELLY, M. (2008). Molecular phylogenetics of tsetse flies (Diptera: Glossinidae) based on mitochondrial (COI, 16S, ND2) and nuclear ribosomal DNA sequences, with an emphasis on the palpalis group. Molecular Phylogenetics and Evolution, 49(1), 227–239. https://doi.org/10.1016/j.ympev.2008.07.011
https://doi.org/10.1016/j.ympev.2008.07.011
Dadheech P., Ballot A., Casper P., Kotut K., Novelo E., Lemma B., Pr?schold T., & Krienitz L. 2010. Phylogenetic relationship and divergence among planktonic strains of Arthrospira (Oscillatoriales, Cyanobacteria) of African, Asian and American origin deduced by 16S?23S ITS and phycocyanin operon sequences. Phycologia, 49(4): 361-372.
https://doi.org/10.2216/09-71.1
Daegan J.G. Inward, Alfried P. Vogler, Paul Eggleton, 2007, 'A comprehensive phylogenetic analysis of termites (Isoptera) illuminates key aspects of their evolutionary biology', Molecular Phylogenetics and Evolution, vol. 44, no. 3, pp. 953-967
https://doi.org/10.1016/j.ympev.2007.05.014
Dai, M., He, S.-L., Chen, B., & Li, T.-J. (2023). Phylogeny of Rhynchium and Its Related Genera (Hymenoptera: Eumeninae) Based on Universal Single-Copy Orthologs and Ultraconserved Elements. Insects, 14(9), 775. https://doi.org/10.3390/insects14090775
https://doi.org/10.3390/insects14090775
Dai, Yu-Cheng, Zheng Wang, Manfred Binder, and David S. Hibbett. "Phylogeny and a new species of Sparassis (Polyporales, Basidiomycota): evidence from mitochondrial atp6, nuclear rDNA and rpb2 genes." Mycologia 98, no. 4 (2006): 584-592.
https://doi.org/10.3852/mycologia.98.4.584
Damgaard J. 2012. Phylogeny of the semiaquatic bugs (Hemiptera-Heteroptera, Gerromorpha). Insect Systematics & Evolution, 39(4): 431-460.
https://doi.org/10.1163/187631208788784264
Damgaard, J., & Cognato, A. I. (2005). Phylogeny and reclassification of species groups in Aquarius Schellenberg, Limnoporus Stål and Gerris Fabricius (Insecta: Hemiptera‐Heteroptera, Gerridae). Systematic Entomology, 31(1), 93–112. Portico. https://doi.org/10.1111/j.1365-3113.2005.00302.x
https://doi.org/10.1111/j.1365-3113.2005.00302.x
Damgaard, J., & Sperling, F. A. H. (2001). Phylogeny of the water strider genus Gerris Fabricius (Heteroptera: Gerridae) based on COI mtDNA, EF‐1α nuclear DNA and morphology. Systematic Entomology, 26(2), 241–254. Portico. https://doi.org/10.1046/j.1365-3113.2001.00141.x
https://doi.org/10.1046/j.1365-3113.2001.00141.x
Damgaard, J., Andersen, N. M., & Meier, R. (2005). Combining molecular and morphological analyses of water strider phylogeny (Hemiptera–Heteroptera, Gerromorpha): effects of alignment and taxon sampling. Systematic Entomology, 30(2), 289–309. Portico. https://doi.org/10.1111/j.1365-3113.2004.00275.x
https://doi.org/10.1111/j.1365-3113.2004.00275.x
Dana Carrison-Stone, Robert Van Syoc, Gary Williams, Brian Simison, 2013, 'Two new species of the gorgonian inhabiting barnacle, Conopea (Crustacea, Cirripedia, Thoracica), from the Gulf of Guinea', ZooKeys, vol. 270, pp. 1-20
https://doi.org/10.3897/zookeys.270.3736
Danforth, B. N., Conway, L., & Ji, S. (2003). Phylogeny of Eusocial Lasioglossum Reveals Multiple Losses of Eusociality within a Primitively Eusocial Clade of Bees (Hymenoptera: Halictidae). Systematic Biology, 52(1), 23–36. https://doi.org/10.1080/10635150390132687
https://doi.org/10.1080/10635150390132687
Dang, L., Wang, X., Xie, D., Gao, Y., & Zhao, L. (2021). Complete mitochondrial genome ofGynaikothrips ficorum(Thysanoptera: Phlaeothripidae). Mitochondrial DNA Part B, 6(7), 2033–2034. https://doi.org/10.1080/23802359.2021.1923412
https://doi.org/10.1080/23802359.2021.1923412
Daniel L. Rabosky, Jonathan Chang, Pascal O. Title, Peter F. Cowman, Lauren Sallan, Matt Friedman, Kristin Kaschner, Cristina Garilao, Thomas J. Near, Marta Coll, Michael E. Alfaro, 2018, 'An inverse latitudinal gradient in speciation rate for marine fishes', Nature, vol. 559, no. 7714, pp. 392-395
https://doi.org/10.1038/s41586-018-0273-1
Daniel M Portik, Rayna C Bell, David C Blackburn, Aaron M Bauer, Christopher D Barratt, William R Branch, Marius Burger, Alan Channing, Timothy J Colston, Werner Conradie, J Maximilian Dehling, Robert C Drewes, Raffael Ernst, Eli Greenbaum, Václav Gvoždík, James Harvey, Annika Hillers, Mareike Hirschfeld, Gregory FM Jongsma, Jos Kielgast, Marcel T Kouete, Lucinda P Lawson, Adam D Leaché, Simon P Loader, Stefan Lötters, Arie Van Der Meijden, Michele Menegon, Susanne Müller, Zoltán T Nagy, Caleb Ofori-Boateng, Annemarie Ohler, Theodore J Papenfuss, Daniela Rößler, Ulrich Sinsch, Mark-Oliver Rödel, Michael Veith, Jens Vindum, Ange-Ghislain Zassi-Boulou, Jimmy A McGuire. (2019). Sexual Dichromatism Drives Diversification within a Major Radiation of African Amphibians. Systematic Biology, 68(6), 859–875. doi:10.1093/sysbio/syz023
https://doi.org/10.1093/sysbio/syz023
Daniel, G. M., Davis, A. L. V., Sole, C. L., & Scholtz, C. H. (2020). Evolutionary history and eco‐climatic diversification in southern African dung beetle Sisyphus. Journal of Biogeography, 47(12), 2698–2713. Portico. https://doi.org/10.1111/jbi.13974
https://doi.org/10.1111/jbi.13974
Daniela Campanella, Lily C. Hughes, Peter J. Unmack, Devin D. Bloom, Kyle R. Piller, Guillermo Ortí, 2015, 'Multi-locus fossil-calibrated phylogeny of Atheriniformes (Teleostei, Ovalentaria)', Molecular Phylogenetics and Evolution, vol. 86, pp. 8-23
https://doi.org/10.1016/j.ympev.2015.03.001
Dantas, Sidnei M., Jason D. Weckstein, John M. Bates, Niels K. Krabbe, Carlos Daniel Cadena, Mark B. Robbins, Eugenio Valderrama, Alexandre Aleixo. 2016. Molecular systematics of the new world screech-owls (Megascops: Aves, Strigidae): biogeographic and taxonomic implications. Molecular Phylogenetics and Evolution 94: 626-634
https://doi.org/10.1016/j.ympev.2015.09.025
Darli Massardo, Rodrigo Fornel, Marcus Kronforst, Gislene Lopes Gonçalves, Gilson Rudinei Pires Moreira, 2015, 'Diversification of the silverspot butterflies (Nymphalidae) in the Neotropics inferred from multi-locus DNA sequences', Molecular Phylogenetics and Evolution, vol. 82, pp. 156-165
https://doi.org/10.1016/j.ympev.2014.09.018
Daugeron, C., & Grootaert, P. (2003). Assessment of monophyly of species‐groups within Afrotropical Empidini (Diptera: Empididae: Empidinae), with a cladistic analysis of the Empis setitarsus‐group. Systematic Entomology, 28(3), 339–360. Portico. https://doi.org/10.1046/j.1365-3113.2003.00214.x
https://doi.org/10.1046/j.1365-3113.2003.00214.x
David Alors, H. Thorsten Lumbsch, Pradeep K. Divakar, Steven D. Leavitt, Ana Crespo, 2016, 'An Integrative Approach for Understanding Diversity in the Punctelia rudecta Species Complex (Parmeliaceae, Ascomycota)', PLOS ONE, vol. 11, no. 2, p. e0146537
https://doi.org/10.1371/journal.pone.0146537
David Maddison, 2014, 'An unexpected clade of South American ground beetles (Coleoptera, Carabidae, Bembidion)', ZooKeys, vol. 416, pp. 113-155
https://doi.org/10.3897/zookeys.416.7706
David T. Drumm, 2010, 'Phylogenetic Relationships of Tanaidacea (Eumalacostraca: Peracarida) Inferred from Three Molecular Loci', Journal of Crustacean Biology, vol. 30, no. 4, pp. 692-698
https://doi.org/10.1651/10-3299.1
David John Rees, Christoph Noever, Jens Thorvald Høeg, Anders Ommundsen, Henrik Glenner, 2014, 'On the Origin of a Novel Parasitic-Feeding Mode within Suspension-Feeding Barnacles', Current Biology, vol. 24, no. 12, pp. 1429-1434
https://doi.org/10.1016/j.cub.2014.05.030
Davies, Owen R, Taxonomy, phylogeny and biogeography of cisticolas (Cisticola spp.) 2015
https://open.uct.ac.za/items/d5644c7b-f4a8-4e30-a518-b6562c628ba3
Davis, C. C., & Anderson, W. R. (2010). A complete generic phylogeny of Malpighiaceae inferred from nucleotide sequence data and morphology. American journal of botany, 97(12), 2031-2048.
https://doi.org/10.3732/ajb.1000146
Davis, K. E., De Grave, S., Delmer, C., Payne, A. R. D., Mitchell, S., & Wills, M. A. (2022). Ecological Transitions and the Shape of the Decapod Tree of Life. Integrative and Comparative Biology, 62(2), 332–344. https://doi.org/10.1093/icb/icac052
https://doi.org/10.1093/icb/icac052
De Jesús-Bonilla, V. S., Meza-Lázaro, R. N., & Zaldívar-Riverón, A. (2019). 3RAD-based systematics of the transitional Nearctic-Neotropical lubber grasshopper genus Taeniopoda (Orthoptera: Romaleidae). Molecular Phylogenetics and Evolution, 137, 64–75. https://doi.org/10.1016/j.ympev.2019.04.019
https://doi.org/10.1016/j.ympev.2019.04.019
De Pinna, M.C.C., Ferraris, C.J., Vari, R.P., 2007. A phylogenetic study of the neotropical catfish family Cetopsidae (Osteichthyes, Ostariophysi, Siluriformes), with a new classification. Zool. J. Linn. Soc. 150, 755-813.
https://doi.org/10.1111/j.1096-3642.2007.00306.x
De Pinna, Mario C. C. 1996. Phylogenetic analysis of the Asian catfish families Sisoridae, Akysidae, and Amblycipitidae, with a hypothesis on the relationships of the Neotropical Aspredinidae (Teleostei, Ostariophysi). Fieldiana 1478. 1-83.
http://agris.fao.org/agris-search/search.do?recordID=US201300304155
De Silva, T. N., Peterson, A. T., & Perktas, U. (2019). An extensive molecular phylogeny of weaverbirds (Aves: Ploceidae) unveils broad nonmonophyly of traditional genera and new relationships. The Auk, 136(3). https://doi.org/10.1093/auk/ukz041
https://doi.org/10.1093/auk/ukz041
De campos santana M., Amalfi M., Castillo G., & Decock C. 2016. Multilocus, DNA-based phylogenetic analysis reveal three new species lineages in the P. gabonensis - P. caribaeo-quercicola species complex, including Phellinus amazonicus sp. nov. Mycologia, .
https://doi.org/10.3852/15-173
Deans, A. R., Gillespie, J. J., & Yoder, M. J. (2006). An evaluation of ensign wasp classification (Hymenoptera: Evaniidae) based on molecular data and insights from ribosomal RNA secondary structure. Systematic Entomology, 31(3), 517–528. Portico. https://doi.org/10.1111/j.1365-3113.2006.00327.x
https://doi.org/10.1111/j.1365-3113.2006.00327.x
Debevec A.H., Cardinal S., & Danforth B. 2012. Identifying the sister group to the bees: a molecular phylogeny of Aculeata with an emphasis on the superfamily Apoidea. Zoologica Scripta, 41, 527-535.
https://doi.org/10.1111/j.1463-6409.2012.00549.x
Delgado-Salinas, A., Bibler, R., & Lavin, M. (2006). Phylogeny of the genus Phaseolus (Leguminosae): a recent diversification in an ancient landscape. Systematic Botany, 31(4), 779-791.
https://doi.org/10.1600/036364406779695960
Dellicour, S., Lecocq, T., Kuhlmann, M., Mardulyn, P., & Michez, D. (2014). Molecular phylogeny, biogeography, and host plant shifts in the bee genus Melitta (Hymenoptera: Anthophila). Molecular Phylogenetics and Evolution, 70, 412–419. https://doi.org/10.1016/j.ympev.2013.08.013
https://doi.org/10.1016/j.ympev.2013.08.013
Delsuc, Frédéric, Georgia Tsagkogeorga, Nicolas Lartillot, andHervé Philippe. 2008. Additional molecular
support for the new chordate phylogeny. Genesis 46 (11): 592-604.
https://doi.org/10.1002/dvg.20450
Delsuc, Frédéric, Gillian C. Gibb, Melanie Kuch, Guillaume Billet, Lionel Hautier, John Southon, Jean-Marie Rouillard, Juan Carlos Fernicola, Sergio F. Vizcaíno, Ross D.E. MacPhee, Hendrik N. Poinar. 2016. The phylogenetic affinities of the extinct glyptodonts. Current Biology 26 (4): R155-R156
https://doi.org/10.1016/j.cub.2016.01.039
Delsuc, Frédéric, Mariella Superina, Marie-Ka Tilak, Emmanuel J.P. Douzery, Alexandre Hassanin. 2012. Molecular phylogenetics unveils the ancient evolutionary origins of the enigmatic fairy armadillos. Molecular Phylogenetics and Evolution 62 (2): 673-680.
https://doi.org/10.1016/j.ympev.2011.11.008
Deng J., Drew B.T., Mavrodiev E.V., Gitzendanner M.A., Soltis P., & Soltis D. 2014. Saxifragaceae: Phylogeny, divergence times, and historical biogeography. Molecular Phylogentics and Evolution, .
https://doi.org/10.1016/j.ympev.2014.11.011
Deng, J., Stroiński, A., Szwedo, J., Ghanavi, H. R., Yapar, E., Franco, D. C., Prus‐Frankowska, M., Michalik, A., Wahlberg, N., & Łukasik, P. (2024). Phylogenomic insights into the relationship and the evolutionary history of planthoppers (Insecta: Hemiptera: Fulgoromorpha). Systematic Entomology. Portico. https://doi.org/10.1111/syen.12666
https://doi.org/10.1111/syen.12666
Deng, W., Luo, X., Ho, S. Y. W., Liao, S., Wang, Z., & Che, Y. (2023). Inclusion of rare taxa from Blattidae and Anaplectidae improves phylogenetic resolution in the cockroach superfamily Blattoidea. Systematic Entomology, 48(1), 23–39. Portico. https://doi.org/10.1111/syen.12560
https://doi.org/10.1111/syen.12560
Deng, Y.-P., Wang, W., Fu, Y.-T., Nie, Y., Xie, Y., & Liu, G.-H. (2023). Morphological and molecular evidence reveals a new species of chewing louse Pancola ailurus n. sp. (Phthiraptera: Trichodectidae) from the endangered Chinese red panda Ailurus styani. International Journal for Parasitology: Parasites and Wildlife, 20, 31–38. https://doi.org/10.1016/j.ijppaw.2022.12.004
https://doi.org/10.1016/j.ijppaw.2022.12.004
Dentinger B., & Mclaughlin D. 2006. Reconstructing the Clavariaceae using nuclear large subunit rDNA sequences and a new genus segregated from Clavaria. Mycologia, 98(5): 746-762.
https://doi.org/10.3852/mycologia.98.5.746
Derryberry, E.P., Claramunt S., Derryberry G.E., Chesser R.T., Cracraft J., Aleixo A., Perez-eman J., Remsen J., and Brumfield R. 2011. Lineage diversification and morphological evolution in a large-scale continental radiation: the Neotropical ovenbirds and woodcreepers (Aves: Furnariidae). Evolution 65 (10): 2973-2986.
https://doi.org/10.1111/j.1558-5646.2011.01374.x
Desjardins, C. A., Regier, J. C., & Mitter, C. (2007). Phylogeny of pteromalid parasitic wasps (Hymenoptera: Pteromalidae): Initial evidence from four protein-coding nuclear genes. Molecular Phylogenetics and Evolution, 45(2), 454–469. https://doi.org/10.1016/j.ympev.2007.08.004
https://doi.org/10.1016/j.ympev.2007.08.004
Desutter‐Grandcolas, L., & Robillard, T. (2005). Phylogenetic systematics and evolution of Agnotecous in New Caledonia (Orthoptera: Grylloidea, Eneopteridae). Systematic Entomology, 31(1), 65–92. Portico. https://doi.org/10.1111/j.1365-3113.2005.00299.x
https://doi.org/10.1111/j.1365-3113.2005.00299.x
Devos, N., Barker, N. P., Nordenstam, B., & Mucina, L. (2010). A multi-locus phylogeny of Euryops (Asteraceae, Senecioneae) augments support for the" Cape to Cairo" hypothesis of floral migrations in Africa. Taxon, 59(1), 57-67.
http://www.ingentaconnect.com/content/iapt/tax/2010/00000059/00000001/art00007
Devos, N., Raspé, O., Oh, S. H., Tyteca, D., & Jacquemart, A. L. (2006). The evolution of Dactylorhiza (Orchidaceae) allotetraploid complex: insights from nrDNA sequences and cpDNA PCR-RFLP data. Molecular Phylogenetics and Evolution, 38(3) 767–778.
https://doi.org/10.1016/j.ympev.2005.11.013
Di Giulio, A., Fattorini, S., Kaupp, A., Taglianti, A. V., & Nagel, P. (2003). Review of competing hypotheses of phylogenetic relationships of Paussinae (Coleoptera: Carabidae) based on larval characters. Systematic Entomology, 28(4), 509–537. Portico. https://doi.org/10.1046/j.1365-3113.2003.00227.x
https://doi.org/10.1046/j.1365-3113.2003.00227.x
Dias, L. G., Molineri, C., Takiya, D., Benavides, P., & Bacca, T. (2019). Phylogeny of Tricorythodes Ulmer (Leptohyphidae: Ephemeroptera) based on molecular and morphological evidence. Zoologischer Anzeiger, 278, 38–45. https://doi.org/10.1016/j.jcz.2018.10.008
https://doi.org/10.1016/j.jcz.2018.10.008
Diepeveen, E. T., Kim, F. D., & Salzburger, W. (2013). Sequence analyses of the distal-less homeobox gene family in East African cichlid fishes reveal signatures of positive selection. BMC Evolutionary Biology, 13(1), 153. https://doi.org/10.1186/1471-2148-13-153
https://doi.org/10.1186/1471-2148-13-153
Dietrich, C. H. 1994. Systematics of the leafhopper genus Draeculacephala (Homoptera: Cicadellidae). Transactions of the American Entomological Society 120: 87-112.
http://www.jstor.org/stable/40785182
Dietrich, C. H. (2004). Phylogeny of the leafhopper subfamily Evacanthinae with a review of Neotropical species and notes on related groups (Hemiptera: Membracoidea: Cicadellidae). Systematic Entomology, 29(4), 455–487. Portico. https://doi.org/10.1111/j.0307-6970.2004.00250.x
https://doi.org/10.1111/j.0307-6970.2004.00250.x
Dietrich, C. H., Mckamey, S. H., & Deitz, L. L. (2001). Morphology‐based phylogeny of the treehopper family Membracidae (Hemiptera: Cicadomorpha: Membracoidea). Systematic Entomology, 26(2), 213–239. Portico. https://doi.org/10.1046/j.1365-3113.2001.00140.x
https://doi.org/10.1046/j.1365-3113.2001.00140.x
Dijkstra, E., Rubio, J. M., & Post, R. J. (2003). Resolving relationships over a wide taxonomic range in Delphacidae (Homoptera) using the COI gene. Systematic Entomology, 28(1), 89–100. Portico. https://doi.org/10.1046/j.1365-3113.2003.00203.x
https://doi.org/10.1046/j.1365-3113.2003.00203.x
Ding, S., Li, W., Wang, Y., Cameron, S. L., Murányi, D., & Yang, D. (2019). The phylogeny and evolutionary timescale of stoneflies (Insecta: Plecoptera) inferred from mitochondrial genomes. Molecular Phylogenetics and Evolution, 135, 123–135. https://doi.org/10.1016/j.ympev.2019.03.005
https://doi.org/10.1016/j.ympev.2019.03.005
Djernæs, M., & Murienne, J. (2022). Phylogeny of Blattoidea (Dictyoptera: Blattodea) with a revised classification of Blattidae. Arthropod Systematics & Phylogeny, 80, 209–228. https://doi.org/10.3897/asp.80.e75819
https://doi.org/10.3897/asp.80.e75819
Djernæs, M., Varadinova, Z., Kotyl, M., Eulitz, U. and Klass, K., 2020. Phylogeny and life history evolution of Blaberoidea (Blattodea). Arthropod Systematics & Phylogeny, 78, pp.29-67.
http://www.doi.org/10.26049/ASP78-1-2020-03
Dohrmann, M., Janussen D., Reitner J., Collins A., & Woerheide G. 2008. Phylogeny and evolution of glass sponges (Porifera, Hexactinellida). Systematic Biology 57 (3): 388-405.
https://doi.org/10.1080/10635150802161088
Dohrmann, M., Janussen D., Reitner J., Collins A., and Woerheide G. 2009. Phylogeny of glass sponges (Porifera, Hexactinellida): monophyly of Lyssacinosida and position of additional taxa. Molecular Phylogenetics and Evolution 57 (3): 388-405.
https://doi.org/10.1016/j.ympev.2009.01.010
Domingos Cardoso, Wallace M.B. São-Mateus, Daiane Trabuco da Cruz, Charles E. Zartman, Dirce L. Komura, Geoffrey Kite, Gerhard Prenner, Jan J. Wieringa, Alexandra Clark, Gwilym Lewis, R. Toby Pennington, Luciano Paganucci de Queiroz, 2015, 'Filling in the gaps of the papilionoid legume phylogeny: The enigmatic Amazonian genus Petaladenium is a new branch of the early-diverging Amburaneae clade', Molecular Phylogenetics and Evolution, vol. 84, pp. 112-124
https://doi.org/10.1016/j.ympev.2014.12.015
Dominic A. Evangelista, Benjamin Wipfler, Olivier Béthoux, Alexander Donath, Mari Fujita, Manpreet K. Kohli, Frédéric Legendre, Shanlin Liu, Ryuichiro Machida, Bernhard Misof, Ralph S. Peters, Lars Podsiadlowski, Jes Rust, Kai Schuette, Ward Tollenaar, Jessica L. Ware, Torsten Wappler, Xin Zhou, Karen Meusemann, Sabrina Simon, 2019, 'An integrative phylogenomic approach illuminates the evolutionary history of cockroaches and termites (Blattodea)', Proceedings of the Royal Society B: Biological Sciences, vol. 286, no. 1895, p. 20182076
https://doi.org/10.1098/rspb.2018.2076
Domínguez, M. C., & Roig-Juñent, S. A. (2008). A phylogeny of the family Fanniidae Schnabl (Insecta:Diptera:Calyptratae) based on adult morphological characters, with special reference to the Austral species of the genus Fannia. Invertebrate Systematics, 22(5), 563. https://doi.org/10.1071/is08003
https://doi.org/10.1071/is08003
Dong, X., Wang, K., Tang, Z., Zhang, Y., Yi, W., Xue, H., Zheng, C., & Bu, W. (2022). Phylogeny of Coreoidea based on mitochondrial genomes show the paraphyly of Coreidae and Alydidae. Archives of Insect Biochemistry and Physiology, 110(1). Portico. https://doi.org/10.1002/arch.21878
https://doi.org/10.1002/arch.21878
Dong, Y., Jelocnik, M., Gillett, A., Valenza, L., Conroy, G., Potvin, D., & Shao, R. (2023). Mitochondrial Genome Fragmentation Occurred Multiple Times Independently in Bird Lice of the Families Menoponidae and Laemobothriidae. Animals, 13(12), 2046. https://doi.org/10.3390/ani13122046
https://doi.org/10.3390/ani13122046
Dong, Y., Zhao, M., & Shao, R. (2022). Fragmented mitochondrial genomes of seal lice (family Echinophthiriidae) and gorilla louse (family Pthiridae): frequent minichromosomal splits and a host switch of lice between seals. BMC Genomics, 23(1). https://doi.org/10.1186/s12864-022-08530-8
https://doi.org/10.1186/s12864-022-08530-8
Dong, Y., Zhu, L.-X., Wang, C.-B., Zhang, M., & Ding, P.-P. (2016). The complete mitochondrial genome of Luehdorfia chinensis Leech (Lepidoptera: Papilionidae) from China. Mitochondrial DNA Part B, 1(1), 198–199. https://doi.org/10.1080/23802359.2016.1155084
https://doi.org/10.1080/23802359.2016.1155084
Dong, Z., Liu, X., Mao, C., He, J., & Li, X. (2022). Xenos yangi sp. nov.: A new twisted-wing parasite species (Strepsiptera, Xenidae) from Gaoligong Mountains, Southwest China. ZooKeys, 1085, 11–27. https://doi.org/10.3897/zookeys.1085.76484
https://doi.org/10.3897/zookeys.1085.76484
Dongyu H., Lianhai H., Lijun Z., & Xing X. 2010. A pre-Archaeopteryx troodontid theropod from China with long feathers on the metatarsus. Nature, 461: 640-643.
https://doi.org/10.1038/nature08322
Donne-Goussé, Carole, Vincent Laudet, Catherine Hänni. 2002. A molecular phylogeny of anseriformes based on mitochondrial DNA analysis. Molecular Phylogenetics and Evolution 23 (3): 339-356
https://doi.org/10.1016/s1055-7903(02)00019-2
Dor, Roi, Rebecca J. Safran, Frederick H. Sheldon, David W. Winkler, Irby J. Lovette. 2010. Phylogeny of the genus Hirundo and the Barn Swallow subspecies complex. Molecular Phylogenetics and Evolution 56 (1): 409-418.
https://doi.org/10.1016/j.ympev.2010.02.008
Dorchin, A., Shafir, A., Neumann, F. H., Langgut, D., Vereecken, N. J., & Mayrose, I. (2021). Bee flowers drive macroevolutionary diversification in long-horned bees. Proceedings of the Royal Society B: Biological Sciences, 288(1959). https://doi.org/10.1098/rspb.2021.0533
https://doi.org/10.1098/rspb.2021.0533
Dorchin, N., Freidberg, A., & Mokady, O. (2004). Phylogeny of the Baldratiina (Diptera: Cecidomyiidae) inferred from morphological, ecological and molecular data sources, and evolutionary patterns in plant–galler relationships. Molecular Phylogenetics and Evolution, 30(3), 503–515. https://doi.org/10.1016/s1055-7903(03)00232-x
https://doi.org/10.1016/s1055-7903(03)00232-x
Dorchin, N., Harris, K. M., & Stireman, J. O. (2019). Phylogeny of the gall midges (Diptera, Cecidomyiidae, Cecidomyiinae): Systematics, evolution of feeding modes and diversification rates. Molecular Phylogenetics and Evolution, 140, 106602. https://doi.org/10.1016/j.ympev.2019.106602
https://doi.org/10.1016/j.ympev.2019.106602
Doré, M., Borowiec, M. L., Branstetter, M. G., Camacho, G. P., Fisher, B. L., Longino, J. T., Ward, P. S., & Blaimer, B. B. (2025). Evolutionary history of ponerine ants highlights how the timing of dispersal events shapes modern biodiversity. Nature Communications, 16(1). https://doi.org/10.1038/s41467-025-63709-3
https://doi.org/10.1038/s41467-025-63709-3
Dos Remedios, Natalie, Patricia L.M. Lee, Terry Burke, Tamás Székely, Clemens Küpper. 2015. North or south? Phylogenetic and biogeographic origins of a globally distributed avian clade. Molecular Phylogenetics and Evolution 89:151-159.
https://doi.org/10.1016/j.ympev.2015.04.010
Douanla-meli C., & Langer E. 2008. Phylogenetic relationship of Marasmius mbalmayoensis sp. nov. to the the tropical African Marasmius bekolacongoli complex based on nuc-LSU rDNA sequences. Mycologia, 100(3): 445-454.
https://doi.org/10.3852/07-009R2
Douglas, H. B., Kundrata, R., Brunke, A. J., Escalona, H. E., Chapados, J. T., Eyres, J., Richter, R., Savard, K., Ślipiński, A., McKenna, D., & Dettman, J. R. (2021). Anchored Phylogenomics, Evolution and Systematics of Elateridae: Are All Bioluminescent Elateroidea Derived Click Beetles? Biology, 10(6), 451. https://doi.org/10.3390/biology10060451
https://doi.org/10.3390/biology10060451
Downie, D. A., & Gullan, P. J. (2004). Phylogenetic analysis of mealybugs (Hemiptera: Coccoidea: Pseudococcidae) based on DNA sequences from three nuclear genes, and a review of the higher classification. Systematic Entomology, 29(2), 238–260. Portico. https://doi.org/10.1111/j.0307-6970.2004.00241.x
https://doi.org/10.1111/j.0307-6970.2004.00241.x
Downie, S. R., Katz-Downie, D. S., & Spalik, K. (2000). A phylogeny of Apiaceae tribe Scandiceae: evidence from nuclear ribosomal DNA internal transcribed spacer sequences. American Journal of Botany, 87(1), 76-95.
https://doi.org/10.2307/2656687
Dowton, M., & Austin, A. D. (1998). Phylogenetic Relationships among the Microgastroid Wasps (Hymenoptera: Braconidae): Combined Analysis of 16S and 28S rDNA Genes and Morphological Data. Molecular Phylogenetics and Evolution, 10(3), 354–366. https://doi.org/10.1006/mpev.1998.0533
https://doi.org/10.1006/mpev.1998.0533
Drew, B. T., & Sytsma, K. J. (2012). Phylogenetics, biogeography, and staminal evolution in the tribe Mentheae (Lamiaceae). American Journal of Botany, 99(5), 933-953.
https://doi.org/10.3732/ajb.1100549
Drew, Bryan T., Kenneth J. Sytsma. 2013. The South American radiation of Lepechinia (Lamiaceae): phylogenetics, divergence times and evolution of dioecy. Botanical Journal of the Linnean Society 171 (1): 171-190.
https://doi.org/10.1111/j.1095-8339.2012.01325.x
Driscoll, H. E., & Barrington, D. S. (2007). Origin of Hawaiian Polystichum (Dryopteridaceae) in the context of a world phylogeny. American Journal of Botany, 94(8), 1413-1424.
https://doi.org/10.3732/ajb.94.8.1413
Drummond, C. S., Eastwood, R. J., Miotto, S. T., & Hughes, C. E. (2012). Multiple continental radiations and correlates of diversification in Lupinus (Leguminosae): testing for key innovation with incomplete taxon sampling. Systematic Biology 61(3), 443-460.
https://doi.org/10.1093/sysbio/syr126
Du M., Schardl C., Nuckles E., & Vaillancourt L. 2005. Using Mating-Type Gene Sequences for Improved Phylogenetic Resolution of Colletotrichum Species Complexes. Mycologia, 97: 641-658.
https://doi.org/10.3852/mycologia.97.3.641
Duan, J., Quan, G., Mittapalli, O., Cusson, M., Krell, P. J., & Doucet, D. (2017). The complete mitogenome of the Emerald Ash Borer (EAB), Agrilus planipennis (Insecta: Coleoptera: Buprestidae). Mitochondrial DNA Part B, 2(1), 134–135. https://doi.org/10.1080/23802359.2017.1292476
https://doi.org/10.1080/23802359.2017.1292476
Duelli, P., Henry, C. S., Hayashi, M., Nomura, M., & Mochizuki, A. (2016). Molecular phylogeny and morphology of Pseudomallada (Neuroptera: Chrysopidae), one of the largest genera within Chrysopidae. Zoological Journal of the Linnean Society, 180(3), 556–569. https://doi.org/10.1093/zoolinnean/zlw008
https://doi.org/10.1093/zoolinnean/zlw008
Dufort, Matthew J. 2015. An augmented supermatrix phylogeny of the avian family Picidae reveals uncertainty deep in the family tree. Molecular Phylogenetics and Evolution
https://doi.org/10.1016/j.ympev.2015.08.025
Dumans, A. T. N., Grimaldi, D. B., Furtado, C., Machado, E. de A., & Prosdocimi, F. (2017). The complete mitochondrial genome of the subsocial cockroachNauphoeta cinereaand phylogenomic analyses of Blattodea mitogenomes suggest reclassification of superfamilies. Mitochondrial DNA Part B, 2(1), 76–78. https://doi.org/10.1080/23802359.2017.1285207
https://doi.org/10.1080/23802359.2017.1285207
Dumbacher, J. P., Deiner, K., Thompson, L., & Fleischer, R. C. (2008). Phylogeny of the avian genus Pitohui and the evolution of toxicity in birds. Molecular Phylogenetics and Evolution, 49(3), 774-781.
https://doi.org/10.1016/j.ympev.2008.09.018
Dumbacher, J., Pratt, T.K., Fleischer, R.C. 2003. Phylogeny of the owlet-nightjars (Aves: Aegothelidae) based on mitochondrial DNA sequence. Molecular Phylogenetics and Evolution 29 (3): 540-549.
https://doi.org/10.1016/s1055-7903(03)00135-0
Dumont, H. J., Vanfleteren, J. R., De Jonckheere, J. F., & Weekers, P. H. H. (2005). Phylogenetic Relationships, Divergence Time Estimation, and Global Biogeographic Patterns of Calopterygoid Damselflies (Odonata, Zygoptera) Inferred from Ribosomal DNA Sequences. Systematic Biology, 54(3), 347–362. https://doi.org/10.1080/10635150590949869
https://doi.org/10.1080/10635150590949869
Dunn, C., Pugh P., & Haddock S. 2005. Molecular phylogenetics of the Siphonophora (Cnidaria), with implications for the evolution of functional specialization. Systematic Biology 54 (6): 916-935.
https://doi.org/10.1080/10635150500354837
Dupin J., & Smith S.D. 2018. Phylogenetics of Datureae (Solanaceae), including description of the new genus Trompettia and re-circumscription of the tribe. Taxon, 67(2): 359-375.
https://doi.org/10.12705/672.6
Dupin, J., Matzke, N. J., Särkinen, T., Knapp, S., Olmstead, R. G., Bohs, L., & Smith, S. D. (2016). Bayesian estimation of the global biogeographical history of the Solanaceae. Journal of Biogeography, 44(4), 887–899. Portico. https://doi.org/10.1111/jbi.12898
https://doi.org/10.1111/jbi.12898
Duur K. Aanen, Paul Eggleton, 2005, 'Fungus-Growing Termites Originated in African Rain Forest', Current Biology, vol. 15, no. 9, pp. 851-855
https://doi.org/10.1016/j.cub.2005.03.043
D’Agostino, E. R. R., Vivero, R., Romero, L., Bejarano, E., Hurlbert, A. H., Comeault, A. A., & Matute, D. R. (2022). Climatic niche conservatism in a clade of disease vectors (Diptera: Phlebotominae). https://doi.org/10.1101/2022.01.05.475052
https://doi.org/10.1101/2022.01.05.475052
D’Haese, C. A. (2003). Morphological appraisal of Collembola phylogeny with special emphasis on Poduromorpha and a test of the aquatic origin hypothesis. Zoologica Scripta, 32(6), 563–586. Portico. https://doi.org/10.1046/j.1463-6409.2003.00134.x
https://doi.org/10.1046/j.1463-6409.2003.00134.x
E. Braga, R. Zardoya, A. Meyer, J. Yen, 1999, 'Mitochondrial and nuclear rRNA based copepod phylogeny with emphasis on the Euchaetidae (Calanoida)', Marine Biology, vol. 133, no. 1, pp. 79-90
https://doi.org/10.1007/s002270050445
E. Guatimosim, P.B. Schwartsburd, R.W. Barreto, P.W. Crous, 2016, 'Novel fungi from an ancient niche: cercosporoid and related sexual morphs on ferns', Persoonia - Molecular Phylogeny and Evolution of Fungi, vol. 37, no. 1, pp. 106-141
https://doi.org/10.3767/003158516x690934
E. Hajdu, T. S. de Paula, N. E. Redmond, B. Cosme, A. G. Collins, G. Lobo-Hajdu, 2013, 'Mycalina: Another Crack in the Poecilosclerida Framework', Integrative and Comparative Biology, vol. 53, no. 3, pp. 462-472
https://doi.org/10.1093/icb/ict074
E. Viale, I. Martinez-Sañudo, J.M. Brown, M. Simonato, V. Girolami, A. Squartini, A. Bressan, M. Faccoli, L. Mazzon, 2015, 'Pattern of association between endemic Hawaiian fruit flies (Diptera, Tephritidae) and their symbiotic bacteria: Evidence of cospeciation events and proposal of “Candidatus Stammerula trupaneae”', Molecular Phylogenetics and Evolution, vol. 90, pp. 67-79
https://doi.org/10.1016/j.ympev.2015.04.025
EDWIN SCHOLES III, 2008, 'Evolution of the courtship phenotype in the bird of paradise genus Parotia (Aves: Paradisaeidae): homology, phylogeny, and modularity', Biological Journal of the Linnean Society, vol. 94, no. 3, pp. 491-504
https://doi.org/10.1111/j.1095-8312.2008.01012.x
EMMANUEL F. A. TOUSSAINT, MATTHIAS SEIDEL, EMMANUEL ARRIAGA-VARELA, JIŘÍ HÁJEK, DAVID KRÁL, LUKAŠ SEKERKA, ANDREW E. Z. SHORT, MARTIN FIKÁČEK, 2016, 'The peril of dating beetles', Systematic Entomology
https://doi.org/10.1111/syen.12198
ESCALONA, H. E., & ŚLIPIŃSKI, A. (2011). Generic revision and phylogeny of Microweiseinae (Coleoptera: Coccinellidae). Systematic Entomology, 37(1), 125–171. Portico. https://doi.org/10.1111/j.1365-3113.2011.00601.x
https://doi.org/10.1111/j.1365-3113.2011.00601.x
ESCALONA, H. E., LAWRENCE, J. F., WANAT, M., & ŚLIPIŃSKI, A. (2015). Phylogeny and placement of Boganiidae (Coleoptera, Cucujoidea) with a review of Australian and New Caledonian taxa. Systematic Entomology, 40(3), 628–651. Portico. https://doi.org/10.1111/syen.12126
https://doi.org/10.1111/syen.12126
EVANGELISTA, O., SAKAKIBARA, A. M., CRYAN, J. R., & URBAN, J. M. (2016). A phylogeny of the treehopper subfamily Heteronotinae reveals convergent pronotal traits (Hemiptera: Auchenorrhyncha: Membracidae). Systematic Entomology, 42(2), 410–428. Portico. https://doi.org/10.1111/syen.12221
https://doi.org/10.1111/syen.12221
EVANS, A. M., MCKENNA, D. D., BELLAMY, C. L., & FARRELL, B. D. (2014). Large‐scale molecular phylogeny of metallic wood‐boring beetles (<scp>C</scp>oleoptera: <scp>B</scp>uprestoidea) provides new insights into relationships and reveals multiple evolutionary origins of the larval leaf‐mining habit. Systematic Entomology, 40(2), 385–400. Portico. https://doi.org/10.1111/syen.12108
https://doi.org/10.1111/syen.12108
Earl, C., Belitz, M. W., Laffan, S. W., Barve, V., Barve, N., Soltis, D. E., … Guralnick, R. (2020). Spatial phylogenetics of butterflies in relation to environmental drivers and angiosperm diversity across North America. doi:10.1101/2020.07.22.216119
https://doi.org/10.1101/2020.07.22.216119
Easton, E. E., & Thistle, D. (2016). Do some deep‐sea, sediment‐dwelling species of harpacticoid copepods have 1000‐km‐scale range sizes? Molecular Ecology, 25(17), 4301–4318. Portico. https://doi.org/10.1111/mec.13744
https://doi.org/10.1111/mec.13744
Easton, E. E., Thistle, D., & Spears, T. (2010). Species boundaries in Zausodes-complex species (Copepoda:Harpacticoida:Harpacticidae) from the north-eastern Gulf of Mexico. Invertebrate Systematics, 24(3), 258. https://doi.org/10.1071/is09038
https://doi.org/10.1071/is09038
Eckert, A. J., & Hall, B. D. (2006). Phylogeny, historical biogeography, and patterns of diversification for< i> Pinus</i>(Pinaceae): Phylogenetic tests of fossil-based hypotheses. Molecular Phylogenetics and Evolution, 40(1), 166-182.
https://doi.org/10.1016/j.ympev.2006.03.009
Economo E.P., Klimov P.B., Sarnat E.M., Guénard B., Weiser M.D., Lecroq B., & Knowles L.L. 2014. Global phylogenetic structure of the hyperdiverse ant genus Pheidole reveals the repeated evolution of macroecological patterns. Proceedings of the Royal Society B: Biological Sciences, 282: 1-10.
https://doi.org/10.1098/rspb.2014.1416
Edgerly, J. S., Sandel, B., Regoli, I., & Okolo, O. (2020). Silk Spinning Behavior Varies from Species-Specific to Individualistic in Embioptera: Do Environmental Correlates Account for this Diversity? Insect Systematics and Diversity, 4(2). https://doi.org/10.1093/isd/ixaa007
https://doi.org/10.1093/isd/ixaa007
Eiji Tanaka, Chihiro Tanaka, 2008, 'Phylogenetic study of clavicipitaceous fungi using acetaldehyde dehydrogenase gene sequences', Mycoscience, vol. 49, no. 2, pp. 115-125
https://doi.org/10.1007/s10267-007-0401-5
Eimanifar, A., Kimball, R. T., Braun, E. L., Fuchs, S., Grünewald, B., & Ellis, J. D. (2017). The complete mitochondrial genome and phylogenetic placement of Apis nigrocincta Smith (Insecta: Hymenoptera: Apidae), an Asian, cavity-nesting honey bee. Mitochondrial DNA Part B, 2(1), 249–250. https://doi.org/10.1080/23802359.2017.1318683
https://doi.org/10.1080/23802359.2017.1318683
Eklof, J., Pleijel F., & Sundberg P. 2007. Phylogeny of benthic Phyllodocidae (Polychaeta) based on morphological and molecular data. Molecular Phylogenetics and Evolution 45 (1): 261-271.
https://doi.org/10.1016/j.ympev.2007.04.015
Ekrem T., Willassen E., & Stur E. 2010. Phylogenetic utility of five genes for dipteran phylogeny: a test case in the Chironomidae leads to generic synonymies. Molecular Phylogenetics and Evolution, 57: 561-571.
https://doi.org/10.1016/j.ympev.2010.06.006
Elizabeth Christina Miller, Hsiu-Chin Lin, Philip A. Hastings, 2016, 'Improved resolution and a novel phylogeny for the Neotropical triplefin blennies (Teleostei: Tripterygiidae)', Molecular Phylogenetics and Evolution, vol. 96, pp. 70-78
https://doi.org/10.1016/j.ympev.2015.12.003
Ellison N., Liston A., Steiner J., Williams W., & Taylor N. 2006. Molecular phylogenetics of the clover genus (Trifolium--Leguminosae). Molecular Phylogenetics and Evolution, 39(3): 688-705.
https://doi.org/10.1016/j.ympev.2006.01.004
Elsayed, A. K. (2023). Integrative taxonomy reveals a new gall midge genus and species (Diptera: Cecidomyiidae) developing in the flower buds of Pongamia pinnata (Fabaceae) in Japan. Zoological Journal of the Linnean Society, 202(1). https://doi.org/10.1093/zoolinnean/zlad152
https://doi.org/10.1093/zoolinnean/zlad152
Endo M., Hatakeyama S., Harada Y., & Tanaka K. 2008. Description of a coelomycete Ciliochorella castaneae newly found in Japan, and notes on the distribution and phylogeny of Ciliochorella. Nippon Kingakukai Kaiho, v. 49(2) p. 115-120
http://agris.fao.org/agris-search/search.do?recordID=JP2009002876
Eric R.L. Gordon, Christiane Weirauch, 2016, 'Efficient capture of natural history data reveals prey conservatism of cryptic termite predators', Molecular Phylogenetics and Evolution, vol. 94, pp. 65-73
https://doi.org/10.1016/j.ympev.2015.08.015
Eric Robert Lucien Gordon, Quinn McFrederick, Christiane Weirauch, 2016, 'Phylogenetic Evidence for Ancient and Persistent Environmental Symbiont Reacquisition in Largidae (Hemiptera: Heteroptera)', Applied and Environmental Microbiology, vol. 82, no. 24, pp. 7123-7133
https://doi.org/10.1128/aem.02114-16
Ericson, P. G. P., Irestedt, M., Nylander, J. A. A., Christidis, L., Joseph, L., & Qu, Y. (2020). Parallel Evolution of Bower-Building Behavior in Two Groups of Bowerbirds Suggested by Phylogenomics. Systematic Biology, 69(5), 820–829. https://doi.org/10.1093/sysbio/syaa040
https://doi.org/10.1093/sysbio/syaa040
Ericson, Per GP, Seraina Klopfstein, Martin Irestedt, Jacqueline MT Nguyen and Johan AA Nylander. 2014. Dating the diversification of the major lineages of Passeriformes (Aves). BMC Evolutionary Biology, 14(8).
https://doi.org/10.1186/1471-2148-14-8
Escalona, H. E., Zwick, A., Li, H.-S., Li, J., Wang, X., Pang, H., Hartley, D., Jermiin, L. S., Nedvěd, O., Misof, B., Niehuis, O., Ślipiński, A., & Tomaszewska, W. (2017). Molecular phylogeny reveals food plasticity in the evolution of true ladybird beetles (Coleoptera: Coccinellidae: Coccinellini). BMC Evolutionary Biology, 17(1). https://doi.org/10.1186/s12862-017-1002-3
https://doi.org/10.1186/s12862-017-1002-3
Espinasa, L., Flick, C., & Giribet, G. (2007). Phylogeny of the American silverfish Cubacubaninae (Hexapoda: Zygentoma: Nicoletiidae): a combined approach using morphology and five molecular loci. Cladistics, 23(1), 22–40. Portico. https://doi.org/10.1111/j.1096-0031.2006.00127.x
https://doi.org/10.1111/j.1096-0031.2006.00127.x
Estefanía Rodríguez, Marcos S. Barbeitos, Mercer R. Brugler, Louise M. Crowley, Alejandro Grajales, Luciana Gusmão, Verena Häussermann, Abigail Reft, Marymegan Daly, 2014, 'Hidden among Sea Anemones: The First Comprehensive Phylogenetic Reconstruction of the Order Actiniaria (Cnidaria, Anthozoa, Hexacorallia) Reveals a Novel Group of Hexacorals', PLoS ONE, vol. 9, no. 5, p. e96998
https://doi.org/10.1371/journal.pone.0096998
Evgeny V. Mavrodiev, Matthew A. Gitzendanner, Andre K. Calaminus, Riccardo M. Baldini, Pamela S. Soltis, Douglas E. Soltis. 2012. Molecular phylogeny of Tragopogon L. (Asteraceae) based on seven nuclear loci (Adh, GapC, LFY, AP3, PI, ITS, and ETS). Webbia 67(2): 111-137. 2012.
https://doi.org/10.1080/00837792.2012.10670912
Evolutionary and taxonomic relationships of Acacia s.l. (Leguminosae: Mimosoideae), Joseph T. Miller,David Seigler, 2012, ', Australian Systematic Botany, vol. 25, no. 3, p. 217
https://doi.org/10.1071/sb11042
F. Santini, M. T. T. Nguyen, L. Sorenson, T. B. Waltzek, J. W. Lynch Alfaro, J. M. Eastman, M. E. Alfaro, 2013, 'Do habitat shifts drive diversification in teleost fishes? An example from the pufferfishes (Tetraodontidae)', Journal of Evolutionary Biology, vol. 26, no. 5, pp. 1003-1018
https://doi.org/10.1111/jeb.12112
FIKÁČEK, M., PROKIN, A., ANGUS, R. B., PONOMARENKO, A., YUE, Y., REN, D., & PROKOP, J. (2012). Phylogeny and the fossil record of the Helophoridae reveal Jurassic origin of extant hydrophiloid lineages (Coleoptera: Polyphaga). Systematic Entomology, 37(3), 420–447. Portico. https://doi.org/10.1111/j.1365-3113.2012.00630.x
https://doi.org/10.1111/j.1365-3113.2012.00630.x
FOLEY, I. A., & IVIE, M. A. (2008). A phylogenetic analysis of the tribe Zopherini with a review ofthe species and generic classification (Coleoptera: Zopheridae). Zootaxa, 1928(1). https://doi.org/10.11646/zootaxa.1928.1.1
https://doi.org/10.11646/zootaxa.1928.1.1
FORSHAGE, M., NORDLANDER, G., & RONQUIST, F. (2008). Quasimodoana, a new Holarctic genus of eucoiline wasps (Hymenoptera, Cynipoidea, Figitidae), with a phylogenetic analysis of related genera. Systematic Entomology, 33(2), 301–318. Portico. https://doi.org/10.1111/j.1365-3113.2007.00415.x
https://doi.org/10.1111/j.1365-3113.2007.00415.x
FRESNEDA, J., SALGADO, J., & RIBERA, I. (2007). Phylogeny of western Mediterranean Leptodirini, with an emphasis on genital characters (Coleoptera: Leiodidae: Cholevinae). Systematic Entomology, 32(2), 332–358. Portico. https://doi.org/10.1111/j.1365-3113.2006.00366.x
https://doi.org/10.1111/j.1365-3113.2006.00366.x
FRIC, Z., WAHLBERG, N., PECH, P., & ZRZAVÝ, J. (2007). Phylogeny and classification of the Phengaris–Maculinea clade (Lepidoptera: Lycaenidae): total evidence and phylogenetic species concepts. Systematic Entomology, 32(3), 558–567. Portico. https://doi.org/10.1111/j.1365-3113.2007.00387.x
https://doi.org/10.1111/j.1365-3113.2007.00387.x
Fabien Burki, Maia Kaplan, Denis V. Tikhonenkov, Vasily Zlatogursky, Bui Quang Minh, Liudmila V. Radaykina, Alexey Smirnov, Alexander P. Mylnikov, Patrick J. Keeling, 2016, 'Untangling the early diversification of eukaryotes: a phylogenomic study of the evolutionary origins of Centrohelida, Haptophyta and Cryptista', Proceedings of the Royal Society B: Biological Sciences, vol. 283, no. 1823, p. 20152802
https://doi.org/10.1098/rspb.2015.2802
Fabre, Pierre-Henri, Lionel Hautier, Dimitar Dimitrov, Emmanuel J P Douzery. 2012. A glimpse on the pattern of rodent diversification: a phylogenetic approach. BMC Evolutionary Biology 12 (1): 88.
https://doi.org/10.1186/1471-2148-12-88
Faille, A., Ribera, I., Deharveng, L., Bourdeau, C., Garnery, L., Quéinnec, E., & Deuve, T. (2010). A molecular phylogeny shows the single origin of the Pyrenean subterranean Trechini ground beetles (Coleoptera: Carabidae). Molecular Phylogenetics and Evolution, 54(1), 97–106. https://doi.org/10.1016/j.ympev.2009.10.008
https://doi.org/10.1016/j.ympev.2009.10.008
Fain, M., Krajewski C., & Houde P. 2007. Phylogeny of "core Gruiformes" (Aves: Grues) and resolution of the Limpkin-Sungrebe problem. Molecular Phylogenetics and Evolution 43 (2): 515-529.
https://doi.org/10.1016/j.ympev.2007.02.015
Faircloth, B. C., Branstetter, M. G., White, N. D., & Brady, S. G. (2014). Target enrichment of ultraconserved elements from arthropods provides a genomic perspective on relationships among <scp>H</scp>ymenoptera. Molecular Ecology Resources, 15(3), 489–501. Portico. https://doi.org/10.1111/1755-0998.12328
https://doi.org/10.1111/1755-0998.12328
Fan P., Liu Y., Zhang Z., Zhao C., Li C., Liu W., & Li M. 2016. Phylogenetic position of the white-cheeked macaque (Macaca leucogenys), a newly described primate from Southeastern Tibet. Molecular Phylogentics and Evolution, .
https://doi.org/10.1016/j.ympev.2016.10.012
Farr, David, and Gonzales-MERCK Platas. "Hydropisphaera fungicola Rossman, Farr & Newcombe, sp. nov." Fungal Planet 24 (2008): 1-2.
No link provided! Try
Google Scholar or
CrossRef.org
Farruggia, F. T., & Howard, J. H. 2011. Examination of five nuclear markers for phylogenetic study of Hologalegina (Leguminosae). Brittonia 63: 489-499.
https://doi.org/10.1007/s12228-011-9189-x
Fefilova E. B., Golubev M. A., Bakashkina A. S., Popova E. I., Dubovskaya O. P., Velegzhaninov I. O.
Integrative analysis of harpacticoid copepod fauna (Harpacticoida, Copepoda) in the south of Krasnoyarsk
Krai: in several Ergaki Nature Park waterbodies and the Yenisei River. J. Sib. Fed. Univ. Biol., 2023, 16(3),
318–335. EDN: NFHZKG
https://elibrary.ru/item.asp?edn=nfhzkg
Fefilova, E. B., Alekseeva, T. M., Popova, E. I., Golubev, M. A., Bakashkina, A. S., Velegzhaninov, I. O., & Novikov, A. A. (2023). Identification of Attheyella nordenskioldii (Copepoda: Harpacticoida) in Lake Baikal using molecular genetic methods. Zoosystematica Rossica, 32(1), 124–134. https://doi.org/10.31610/zsr/2023.32.1.124
https://doi.org/10.31610/zsr/2023.32.1.124
Fehlberg, S. D., & Ranker, T. A. (2007). Phylogeny and biogeography of Encelia (Asteraceae) in the sonoran and peninsular deserts based on multiple DNA sequences. Systematic Botany, 32(3), 692-699.
https://doi.org/10.1600/036364407782250689
Feindt, W., Herzog, R., Osigus, H.-J., Schierwater, B., & Hadrys, H. (2016). Short read sequencing assembly revealed the complete mitochondrial genome of Ischnura elegans Vander Linden, 1820 (Odonata: Zygoptera). Mitochondrial DNA Part B, 1(1), 574–576. https://doi.org/10.1080/23802359.2016.1192510
https://doi.org/10.1080/23802359.2016.1192510
Feindt, W., Osigus, H.-J., Herzog, R., Mason, C. E., & Hadrys, H. (2016). The complete mitochondrial genome of the neotropical helicopter damselflyMegaloprepus caerulatus(Odonata: Zygoptera) assembled from next generation sequencing data. Mitochondrial DNA Part B, 1(1), 497–499. https://doi.org/10.1080/23802359.2016.1192504
https://doi.org/10.1080/23802359.2016.1192504
Felice Driver, Richard J. Milner, John W.H. Trueman, 2000, 'A taxonomic revision of Metarhizium based on a phylogenetic analysis of rDNA sequence data', Mycological Research, vol. 104, no. 2, pp. 134-150
https://doi.org/10.1017/s0953756299001756
Felipe Zapata, Freya E. Goetz, Stephen A. Smith, Mark Howison, Stefan Siebert, Samuel H. Church, Steven M. Sanders, Cheryl Lewis Ames, Catherine S. McFadden, Scott C. France, Marymegan Daly, Allen G. Collins, Steven H. D. Haddock, Casey W. Dunn, Paulyn Cartwright, 2015, 'Phylogenomic Analyses Support Traditional Relationships within Cnidaria', PLOS ONE, vol. 10, no. 10, p. e0139068
https://doi.org/10.1371/journal.pone.0139068
Feng, S., Stiller, J., Deng, Y., Armstrong, J., Fang, Q., Reeve, A. H., Xie, D., Chen, G., Guo, C., Faircloth, B. C., Petersen, B., Wang, Z., Zhou, Q., Diekhans, M., Chen, W., Andreu-Sánchez, S., Margaryan, A., Howard, J. T., Parent, C., … Zhang, G. (2020). Dense sampling of bird diversity increases power of comparative genomics. Nature, 587(7833), 252–257. https://doi.org/10.1038/s41586-020-2873-9
https://doi.org/10.1038/s41586-020-2873-9
Fernando B. Matos, Alejandra Vasco, Robbin C. Moran, 2018, 'Elaphoglossum doanense and Elaphoglossum tonduzii: New Members of Elaphoglossum Sect. Squamipedia (Dryopteridaceae) and Their Significance for Inferring the Evolution of Rhizome Habit and Nest-Forming Leaves within the Genus', International Journal of Plant Sciences, pp. 000-000
https://doi.org/10.1086/696687
Ferreira, M., Aleixo, A., Ribas, C. C., & Santos, M. P. D. (2016). Biogeography of the Neotropical genus Malacoptila (Aves: Bucconidae): the influence of the Andean orogeny, Amazonian drainage evolution and palaeoclimate. Journal of Biogeography, 44(4), 748–759. Portico. https://doi.org/10.1111/jbi.12888
https://doi.org/10.1111/jbi.12888
Ferreira, V. S., Keller, O., & Branham, M. A. (2020). Multilocus Phylogeny Support the Nonbioluminescent FireflyChespiritoas a New Subfamily in the Lampyridae (Coleoptera: Elateroidea). Insect Systematics and Diversity, 4(6). https://doi.org/10.1093/isd/ixaa014
https://doi.org/10.1093/isd/ixaa014
Ferreira, V. S., Roza, A. S., Barbosa, F. F., Vega-Badillo, V., Zaragoza-Caballero, S., Mermudes, J. R. M., Ivie, M. A., Hansen, A. K., Brunke, A. J., Douglas, H. B., Solodovnikov, A., & Kundrata, R. (2024). Phylogenomics of Phengodidae (Coleoptera: Elateroidea): towards a natural classification of a bioluminescent and paedomorphic beetle lineage, with recognition of a new subfamily. Zoological Journal of the Linnean Society, 201(4). https://doi.org/10.1093/zoolinnean/zlae093
https://doi.org/10.1093/zoolinnean/zlae093
Fiaschi, P., & Plunkett, G. M. (2011). Monophyly and phylogenetic relationships of Neotropical Schefflera (Araliaceae) based on plastid and nuclear markers. Systematic Botany, 36(3), 806-817.
https://doi.org/10.1600/036364411X583754
Field J., Ohl M., & Kennedy M. 2011. A molecular phylogeny for digger wasps in the tribe Ammophilini (Hymenoptera, Apoidea, Sphecidae). Systematic Entomology, 36(4): 732-740.
https://doi.org/10.1111/j.1365-3113.2011.00591.x
Filip Husník, Tomáš Chrudimský, Václav Hypša, 2011, 'Multiple origins of endosymbiosis within the Enterobacteriaceae (γ-Proteobacteria): convergence of complex phylogenetic approaches', BMC Biology, vol. 9, no. 1, p. 87
https://doi.org/10.1186/1741-7007-9-87
Filipowicz N.H., & Renner S.S. 2012. Brunfelsia (Solanaceae): A genus evenly divided between South America and radiations on Cuba and other antillean islands. Molecular Phylogenetics and Evolution. 64: 1-11.
https://doi.org/10.1016/j.ympev.2012.02.026
Finet, C., Kassner, V. A., Carvalho, A. B., Chung, H., Day, J. P., Day, S., Delaney, E. K., De Ré, F. C., Dufour, H. D., Dupim, E., Izumitani, H. F., Gautério, T. B., Justen, J., Katoh, T., Kopp, A., Koshikawa, S., Longdon, B., Loreto, E. L., Nunes, M. D. S., … Marlétaz, F. (2021). DrosoPhyla: Resources for Drosophilid Phylogeny and Systematics. Genome Biology and Evolution, 13(8). https://doi.org/10.1093/gbe/evab179
https://doi.org/10.1093/gbe/evab179
Fior S., Li M., Oxelman B., Viola R., Hodges S.A., Ometto L., & Varotto C. 2013. Spatiotemporal reconstruction of the Aquilegia rapid radiation through next-generation sequencing of rapidly evolving cpDNA regions. New Phytologist, 198: 579-592.
https://doi.org/10.1111/nph.12163
Fiore-Donno, A. M., Haskins, E. F., Pawlowski, J., & Cavalier-Smith, T. (2009). Semimorula liquescens is a modified echinostelid myxomycete (Mycetozoa). Mycologia, 101(6), 773–776. https://doi.org/10.3852/08-075
https://doi.org/10.3852/08-075
Fiore-donno A., Kamono A., Chao E., Fukui M., & Cavalier-smith T. 2010. Invalidation of Hyperamoeba by transferring its species to other genera of Myxogastria. Journal of Eukaryotic Microbiology, 57(2): 189-196.
https://doi.org/10.1111/j.1550-7408.2009.00466.x
Fishbein, M., Chuba, D., Ellison, C., Mason-Gamer, R. J., & Lynch, S. P. (2011). Phylogenetic relationships of Asclepias (Apocynaceae) inferred from non-coding chloroplast DNA sequences. Systematic Botany, 36(4), 1008-1023.
https://doi.org/10.1600/036364411X605010
Fiz, O., Vargas, P., Alarcon, M. L., & Aldasoro, J. J. (2006). Phylogenetic relationships and evolution in Erodium (Geraniaceae) based on trnL-trnF sequences. Systematic Botany, 31(4), 739-763.
https://doi.org/10.1600/036364406779695906
Flook, P. K., S. Klee, C. H. F. Rowell. 1999. Combined molecular phylogenetic analysis of the Orthoptera (Arthropoda, Insecta) and implications for their higher systematics. Systematic Biology 48 (2): 233-253.
https://doi.org/10.1080/106351599260274
Floudas, Dimitrios, Manfred Binder, Robert Riley, Kerrie Barry, Robert A. Blanchette, Bernard Henrissat, Angel T. Martínez et al. "The Paleozoic origin of enzymatic lignin decomposition reconstructed from 31 fungal genomes." Science 336, no. 6089 (2012): 1715-1719.
https://doi.org/10.1126/science.1221748
Forest, F., Chase, M. W., Persson, C., Crane, P. R., & Hawkins, J. A. (2007). The role of biotic and abiotic factors in evolution of ant dispersal in the milkwort family (Polygalaceae). Evolution, 61(7), 1675-1694.
https://doi.org/10.1111/j.1558-5646.2007.00138
Forgie, S. A., Philips, T. K., & Scholtz, C. H. (2004). Evolution of the Scarabaeini (Scarabaeidae: Scarabaeinae). Systematic Entomology, 30(1), 60–96. Portico. https://doi.org/10.1111/j.1365-3113.2004.00273.x
https://doi.org/10.1111/j.1365-3113.2004.00273.x
Forrest L., Davis E., Long D., Crandall-stotler B., Clark A., & Hollingsworth M.
2006. Unraveling the evolutionary history of the liverworts (Marchantiophyta): multiple
taxa, genomes and analyses. The Bryologist, 109(3): 303-334.
https://doi.org/10.1639/0007-2745(2006)109[303:UTEHOT]2.0.CO;2
Forrest, L. L., Hughes, M., & Hollingsworth, P. M. (2005). A phylogeny of Begonia using nuclear ribosomal sequence data and morphological characters. Systematic botany, 30(3), 671-682.
https://doi.org/10.1600/0363644054782297
Foster, Charles S. P., Hervé Sauquet, Marlien van der Merwe, Hannah McPherson, Maurizio Rossetto, Simon Y. W. Ho. 2016. Evaluating the impact of genomic data and priors on Bayesian estimates of the angiosperm evolutionary timescale. Systematic Biology, p. syw086
https://doi.org/10.1093/sysbio/syw086
Fraija-fernandez N., Olson P., Crespo E., Raga J.A., Aznar F.J., & Fernandez M. 2015. Independence host switching events by digeneans parasites of cetaceans inferred from ribosomal DNA. International Journal for Parasitology, 45(2-3): 167-173.
https://doi.org/10.1016/j.ijpara.2014.10.004
Francesco Santini, Laurie Sorenson, Michael E. Alfaro, 2016, 'Phylogeny and biogeography of hogfishes and allies ( Bodianus , Labridae)', Molecular Phylogenetics and Evolution, vol. 99, pp. 1-6
https://doi.org/10.1016/j.ympev.2016.02.011
Frandsen, P. B., Holzenthal, R. W., Espeland, M., Breinholt, J., Thomas Thorpe, J. A., Simon, S., Kawahara, A. Y., Plotkin, D., Hotaling, S., Li, Y., Nelson, C. R., Niehuis, O., Mayer, C., Podsiadlowski, L., Donath, A., Misof, B., Moriarty Lemmon, E., Lemmon, A., Morse, J. C., … Zhou, X. (2024). Phylogenomics recovers multiple origins of portable case making in caddisflies (Insecta: Trichoptera), nature’s underwater architects. Proceedings of the Royal Society B: Biological Sciences, 291(2026). https://doi.org/10.1098/rspb.2024.0514
https://doi.org/10.1098/rspb.2024.0514
Frederik Leliaert, Juan M Lopez-Bautista, 2015, 'The chloroplast genomes of Bryopsis plumosa and Tydemania expeditiones (Bryopsidales, Chlorophyta): compact genomes and genes of bacterial origin', BMC Genomics, vol. 16, no. 1
https://doi.org/10.1186/s12864-015-1418-3
Freidberg, A. (2002). Systematics of Schistopterini (Diptera: Tephritidae: Tephritinae), with descriptions of new genera and species. Systematic Entomology, 27(1), 1–29. Portico. https://doi.org/10.1046/j.0307-6970.2001.00162.x
https://doi.org/10.1046/j.0307-6970.2001.00162.x
Freitas, A. V. L., & Brown, K. S. (2004). Phylogeny of the Nymphalidae (Lepidoptera). Systematic Biology, 53(3), 363–383. https://doi.org/10.1080/10635150490445670
https://doi.org/10.1080/10635150490445670
Freitas, F. V., Branstetter, M. G., Griswold, T., & Almeida, E. A. B. (2021). Partitioned Gene-Tree Analyses and Gene-Based Topology Testing Help Resolve Incongruence in a Phylogenomic Study of Host-Specialist Bees (Apidae: Eucerinae). Molecular Biology and Evolution, 38(3), 1090–1100. https://doi.org/10.1093/molbev/msaa277
https://doi.org/10.1093/molbev/msaa277
Friar E., Prince L., Roalson E., Mcglaughlin M., Cruse-sanders J., Porter J., & Degroot S. 2006. Ecological speciation in the East Maui-endemic Dubautia (Asteraceae) species. Evolution, 60(9), 1777-1792.
https://doi.org/10.1111/j.0014-3820.2006.tb00522.x
Friederike Woog, Michael Wink, Eskandar Rastegar-Pouyani, Javier Gonzalez, Barbara Helm, 2008, 'Distinct taxonomic position of the Madagascar stonechat (Saxicola torquatus sibilla) revealed by nucleotide sequences of mitochondrial DNA', Journal of Ornithology, vol. 149, no. 3, pp. 423-430
https://doi.org/10.1007/s10336-008-0290-1
Friedlander, T. P., Horst, K. R., Regier, J. C., Mitter, C., Peigler, R. S., & Fang, Q. Q. (1998). Two Nuclear Genes Yield Concordant Relationships within Attacini (Lepidoptera: Saturniidae). Molecular Phylogenetics and Evolution, 9(1), 131–140. https://doi.org/10.1006/mpev.1997.9999
https://doi.org/10.1006/mpev.1997.9999
Friedman, M., B. P. Keck, A. Dornburg, R. I. Eytan, C. H. Martin, C. D. Hulsey, P. C. Wainwright, T. J. Near. 2013. Molecular and fossil evidence place the origin of cichlid fishes long after Gondwanan rifting. Proceedings of the Royal Society B: Biological Sciences 280 (1770): 20131733
https://doi.org/10.1098/rspb.2013.1733
Friedrich, F., & Beutel, R. G. (2010). The thoracic morphology ofNannochorista(Nannochoristidae) and its implications for the phylogeny of Mecoptera and Antliophora. Journal of Zoological Systematics and Evolutionary Research, 48(1), 50–74. https://doi.org/10.1111/j.1439-0469.2009.00535.x
https://doi.org/10.1111/j.1439-0469.2009.00535.x
Friedrich, F., Pohl, H., Beckmann, F., & Beutel, R. G. (2013). The head of Merope tuber (Meropeidae) and the phylogeny of Mecoptera (Hexapoda). Arthropod Structure & Development, 42(1), 69–88. https://doi.org/10.1016/j.asd.2012.09.006
https://doi.org/10.1016/j.asd.2012.09.006
Friel J.P. 1994. A Phylogenetic Study of the Neotropical Banjo Catfishes (Teleostei: Siluriformes: Aspredinidae). Durham, Duke University.
No link provided! Try
Google Scholar or
CrossRef.org
Fritsch, P. W., & Cruz, B. C. (2012). Phylogeny of Cercis based on DNA sequences of nuclear ITS and four plastid regions: Implications for transatlantic historical biogeography. Molecular Phylogenetics and Evolution, 62(3), 816-825.
https://doi.org/10.1016/j.ympev.2011.11.016
Fritsch, P. W., Cruz, B. C., Almeda, F., Wang, Y., & Shi, S. (2006). Phylogeny of Symplocos based on DNA sequences of the chloroplast trnC-trnD intergenic region. Systematic botany, 31(1), 181-192.
https://doi.org/10.1600/036364406775971877
Frolová, P., Horká, I., & Ďuriš, Z. (2022). Molecular phylogeny and historical biogeography of marine palaemonid shrimps (Palaemonidae: Palaemonella–Cuapetes group). Scientific Reports, 12(1). https://doi.org/10.1038/s41598-022-19372-5
https://doi.org/10.1038/s41598-022-19372-5
Froufe, E., Ferreira, S., Boudot, J.-P., Alves, P. C., & Harris, D. J. (2013). Molecular phylogeny of the Western PalaearcticCordulegastertaxa (Odonata: Anisoptera: Cordulegastridae). Biological Journal of the Linnean Society, 111(1), 49–57. https://doi.org/10.1111/bij.12190
https://doi.org/10.1111/bij.12190
Frédéric Delsuc, Melanie Kuch, Gillian C. Gibb, Jonathan Hughes, Paul Szpak, John Southon, Jacob Enk, Ana T. Duggan, Hendrik N. Poinar, 2018, ' Resolving the phylogenetic position of Darwin's extinct ground sloth ( Mylodon darwinii) using mitogenomic and nuclear exon data', Proceedings of the Royal Society B: Biological Sciences, vol. 285, no. 1878, p. 20180214
https://doi.org/10.1098/rspb.2018.0214
Frédéric Legendre, Michael F. Whiting, Christian Bordereau, Eliana M. Cancello, Theodore A. Evans, Philippe Grandcolas, 2008, 'The phylogeny of termites (Dictyoptera: Isoptera) based on mitochondrial and nuclear markers: Implications for the evolution of the worker and pseudergate castes, and foraging behaviors', Molecular Phylogenetics and Evolution, vol. 48, no. 2, pp. 615-627
https://doi.org/10.1016/j.ympev.2008.04.017
Fu, Y.-T., Xun, Y., Peng, Y.-Y., Zhang, Y., & Wu, X. (2024). The complete mitochondrial genome of the rodent flea Nosopsyllus laeviceps: genome description, comparative analysis, and phylogenetic implications. Parasites & Vectors, 17(1). https://doi.org/10.1186/s13071-024-06329-y
https://doi.org/10.1186/s13071-024-06329-y
Fuchs, J., Johnson, J. A., & Mindell, D. P. (2015). Rapid diversification of falcons (Aves: Falconidae) due to expansion of open habitats in the Late Miocene. Molecular Phylogenetics and Evolution, 82, 166–182. https://doi.org/10.1016/j.ympev.2014.08.010
https://doi.org/10.1016/j.ympev.2014.08.010
Fuchs, J., Pasquet, E., Stuart, B. L., Woxvold, I. A., Duckworth, J. W., & Bowie, R. C. K. (2018). Phylogenetic affinities of the enigmatic Bare‐faced Bulbul Pycnonotus hualon with description of a new genus. Ibis, 160(3), 659–665. Portico. https://doi.org/10.1111/ibi.12580
https://doi.org/10.1111/ibi.12580
Fuchs, Jérôme, Jan I. Ohlson, Per G. P. Ericson, Eric Pasquet. 2007. Synchronous intercontinental splits between assemblages of woodpeckers suggested by molecular data. Zoologica Scripta 36 (1): 11-25
https://doi.org/10.1111/j.1463-6409.2006.00267.x
Fuchs, Jérôme, Jeff A. Johnson, David P. Mindell. 2012. Molecular systematics of the caracaras and allies (Falconidae: Polyborinae) inferred from mitochondrial and nuclear sequence data. Ibis 154 (3): 520-532.
https://doi.org/10.1111/j.1474-919X.2012.01222.x
Fuchs, Jérôme, Steven Chen, Jeff A. Johnson, David P. Mindell. 2011. Pliocene diversification within the South American forest falcons (Falconidae: Micrastur). Molecular Phylogenetics and Evolution 60 (3): 398-407.
https://doi.org/10.1016/j.ympev.2011.05.008
Fujii T, Reimer JD (2011) Phylogeny of the highly divergent zoanthid family
Microzoanthidae (Anthozoa, Hexacorallia) from the Pacific. Zoologica Scripta 40: 418-431
https://doi.org/10.1111/j.1463-6409.2011.00479.x
Fulton, T. L., B. Letts, B. Shapiro. 2012. Multiple losses of flight and recent speciation in steamer ducks. Proceedings of the Royal Society B: Biological Sciences 279 (1737): 2339-2346.
https://doi.org/10.1098/rspb.2011.2599
Fulton, T. L., C. Strobeck. 2010. Multiple markers and multiple individuals refine true seal phylogeny and bring molecules and morphology back in line. Proceedings of the Royal Society B: Biological Sciences 277 (1684): 1065-1070.
https://doi.org/10.1098/rspb.2009.1783
Fusca, D. D., Dall’Acqua, M. N., Sánchez-Ramírez, S., & Cutter, A. D. (2025). Phylogenomic timetree-calibrated speciation clocks for Caenorhabditis nematodes reveal slow but disproportionate accumulation of post-zygotic reproductive isolation. PLOS Genetics, 21(9), e1011852. https://doi.org/10.1371/journal.pgen.1011852
https://doi.org/10.1371/journal.pgen.1011852
G. J. van Coller, S. Denman, J. Z. Groenewald, S. C. Lamprecht, P. W. Crous, 2005, ' Characterisation and pathogenicity of Cylindrocladiella spp. associated with root and cutting rot symptoms of grapevines in nurseries ', Australasian Plant Pathology, vol. 34, no. 4, p. 489
https://doi.org/10.1071/ap05058
GARZÓN‐ORDUÑA, I. J. (2011). Phylogenetic evidence for loss of sound production and a shift in sexual recognition signals in Hamadryas butterflies (Nymphalidae: Biblidinae). Systematic Entomology, 37(1), 84–101. Portico. https://doi.org/10.1111/j.1365-3113.2011.00599.x
https://doi.org/10.1111/j.1365-3113.2011.00599.x
GAULD, I. D., WAHL, D. B., & BROAD, G. R. (2002). The suprageneric groups of the Pimplinae (Hymenoptera: Ichneumonidae): a cladistic re-evaluation and evolutionary biological study. Zoological Journal of the Linnean Society, 136(3), 421–485. https://doi.org/10.1046/j.1096-3642.2002.00031.x
https://doi.org/10.1046/j.1096-3642.2002.00031.x
GE, S., BEUTEL, R. G., & YANG, X. (2007). Thoracic morphology of adults of Derodontidae and Nosodendridae and its phylogenetic implications (Coleoptera). Systematic Entomology, 32(4), 635–667. Portico. https://doi.org/10.1111/j.1365-3113.2007.00392.x
https://doi.org/10.1111/j.1365-3113.2007.00392.x
GIBSON, J. F., & COURTNEY, G. W. (2007). Revision of the net‐winged midge genus Horaia Tonnoir and its phylogenetic relationship to other genera within the tribe Apistomyiini (Diptera: Blephariceridae). Systematic Entomology, 32(2), 276–304. Portico. https://doi.org/10.1111/j.1365-3113.2006.00360.x
https://doi.org/10.1111/j.1365-3113.2006.00360.x
GONZALEZ, V. H., GRISWOLD, T., PRAZ, C. J., & DANFORTH, B. N. (2012). Phylogeny of the bee family Megachilidae (Hymenoptera: Apoidea) based on adult morphology. Systematic Entomology, 37(2), 261–286. Portico. https://doi.org/10.1111/j.1365-3113.2012.00620.x
https://doi.org/10.1111/j.1365-3113.2012.00620.x
GONZÁLEZ, J. A. C. (2006). Phylogenetic relationships of the genera of Epipsocetae (Psocoptera: Psocomorpha). Zootaxa, 1194(1). https://doi.org/10.11646/zootaxa.1194.1.1
https://doi.org/10.11646/zootaxa.1194.1.1
GONÇALVES, R. B. (2016). A molecular and morphological phylogeny of the extant Augochlorini (Hymenoptera, Apoidea) with comments on implications for biogeography. Systematic Entomology, 41(2), 430–440. Portico. https://doi.org/10.1111/syen.12166
https://doi.org/10.1111/syen.12166
GRANDINETE, Y. C., HERMES, M. G., & NOLL, F. B. (2014). Systematics and phylogeny of the <scp>N</scp>eotropical Pachymenes de <scp>S</scp>aussure and Santamenes<scp>G</scp>iordani <scp>S</scp>oika (<scp>H</scp>ymenoptera, <scp>V</scp>espidae, <scp>E</scp>umeninae). Systematic Entomology, 40(2), 365–384. Portico. https://doi.org/10.1111/syen.12105
https://doi.org/10.1111/syen.12105
GRAY, D. A., WEISSMAN, D. B., COLE, J. A., LEMMON, E. M., & LEMMON, A. R. (2020). Multilocus phylogeny of Gryllus field crickets (Orthoptera: Gryllidae: Gryllinae) utilizing anchored hybrid enrichment. Zootaxa, 4750(3). https://doi.org/10.11646/zootaxa.4750.3.2
https://doi.org/10.11646/zootaxa.4750.3.2
GREBENNIKOV, V. V. (2009). Discheramocephalini, a new pantropical tribe of featherwing beetles (Coleoptera: Ptiliidae): description of new taxa and phylogenetic analysis. Systematic Entomology, 34(1), 113–136. Portico. https://doi.org/10.1111/j.1365-3113.2008.00444.x
https://doi.org/10.1111/j.1365-3113.2008.00444.x
GUNTER, N. L., LEAVENGOOD, J. M., BARTLETT, J. S., CHAPMAN, E. G., & CAMERON, S. L. (2013). A molecular phylogeny of the checkered beetles and a description of <scp>E</scp>piclininae a new subfamily (<scp>C</scp>oleoptera: <scp>C</scp>leroidea: <scp>C</scp>leridae). Systematic Entomology, 38(3), 626–636. Portico. https://doi.org/10.1111/syen.12019
https://doi.org/10.1111/syen.12019
Gael J. Kergoat, Bruno P. Le Ru, Seyed E. Sadeghi, Midori Tuda, Chris A.M. Reid, Zoltán György, Gwenaëlle Genson, Cibele S. Ribeiro-Costa, Alex Delobel, 2015, 'Evolution of Spermophagus seed beetles (Coleoptera, Bruchinae, Amblycerini) indicates both synchronous and delayed colonizations of host plants', Molecular Phylogenetics and Evolution, vol. 89, pp. 91-103
https://doi.org/10.1016/j.ympev.2015.04.014
Gaimari, S. D., & Tanasijtshuk, V. N. (2001). A new leucopine genus (Diptera: Chamaemyiidae) with species attacking Ceroplastes wax scales (Hemiptera: Coccidae) in South America. Systematic Entomology, 26(3), 311–328. Portico. https://doi.org/10.1046/j.1365-3113.2001.00156.x
https://doi.org/10.1046/j.1365-3113.2001.00156.x
Galbany-Casals, M. [et al. 2009], Garcia-Jacas, N, Sáez, L., Benedí, C., & Susanna, A. 2009. Phylogeny, biogeography, and character evolution in Mediterranean, Asiatic and Macaronesian Helichrysum (Asteraceae, Gnaphalieae) inferred from nuclear phylogenetic analyses. Internat. J. Plant Sci. 170: 365-380.
https://doi.org/10.1086/596332
Galinskaya, T. V., Astakhov, D. M., Propistsova, E. A., & Gorin, V. A. (2020). Phylogenetic Reconstruction of the Subfamilies Asilinae and Stichopogoninae (Diptera, Asilidae) Based on the Mitochondrial Genes 16S and 12S rDNA and Nuclear 18S rDNA. Russian Journal of Genetics, 56(8), 952–971. https://doi.org/10.1134/s1022795420080049
https://doi.org/10.1134/s1022795420080049
Gams W., & Meyer W. 1998. What exactly is Trichoderma harzianum?. Mycologia, 90(5): 904-915.
https://doi.org/10.2307/3761332
Gams W., Klamer M., & O'donnell K. 1999. Fusarium miscanthi sp. nov. from Miscanthus Litter. Mycologia, 91(2): 263-268.
https://doi.org/10.2307/3761371
Gang Yao, Bryan T. Drew, Ting-Shuang Yi, Hai-Fei Yan, Yong-Ming Yuan, Xue-Jun Ge, 2016, 'Phylogenetic relationships, character evolution and biogeographic diversification of Pogostemon s.l. (Lamiaceae)', Molecular Phylogenetics and Evolution, vol. 98, pp. 184-200
https://doi.org/10.1016/j.ympev.2016.01.020
Gao, Feng, Shan Gao, Pu Wang, Laura A. Katz, Weibo Song. 2014. Phylogenetic analyses of cyclidiids (Protista, Ciliophora, Scuticociliatia) based on multiple genes suggest their close relationship with thigmotrichids. Molecular Phylogenetics and Evolution 75: 219-226.
https://doi.org/10.1016/j.ympev.2014.01.032
Gao, X.-Y., Cai, Y.-Y., Yu, D.-N., Storey, K. B., & Zhang, J.-Y. (2018). Characteristics of the complete mitochondrial genome ofSuhpalacsa longialata(Neuroptera, Ascalaphidae) and its phylogenetic implications. PeerJ, 6, e5914. Portico. https://doi.org/10.7717/peerj.5914
https://doi.org/10.7717/peerj.5914
Gao, Y., Ge, Y., Yan, L., Vikhrev, N. E., Wang, Q., Butterworth, N. J., & Zhang, D. (2022). Phylogenetic Analyses Support the Monophyly of the Genus Lispe Latreille (Diptera: Muscidae) with Insights into Intrageneric Relationships. Insects, 13(11), 1015. https://doi.org/10.3390/insects13111015
https://doi.org/10.3390/insects13111015
Garcia-R, J. C., Lemmon, E. M., Lemmon, A. R., & French, N. (2020). Phylogenomic Reconstruction Sheds Light on New Relationships and Timescale of Rails (Aves: Rallidae) Evolution. Diversity, 12(2), 70. https://doi.org/10.3390/d12020070
https://doi.org/10.3390/d12020070
Garcia-R., J. C., & Trewick, S. A. (2015). Dispersal and speciation in purple swamphens (Rallidae:Porphyrio). The Auk, 132(1), 140–155. https://doi.org/10.1642/auk-14-114.1
https://doi.org/10.1642/auk-14-114.1
García-Deras, Gabriela M., Nandadevi Cortés-Rodríguez, Magali Honey, Adolfo G. Navarro-sigüenza, Jaime García-Moreno, Blanca E. Hernández-Baños. 2008. Phylogenetic relationships within the genus Cynanthus (Aves: Trochilidae), with emphasis on C. doubledayi. Zootaxa 1742: 61-68.
http://www.mapress.com/zootaxa/2008/f/zt01742p068.pdf
García–R, Juan C., Gillian C. Gibb, Steve A. Trewick. 2014. Eocene diversification of crown group rails (Aves: Gruiformes: Rallidae). PLoS ONE 9 (10): e109635
https://doi.org/10.1371/journal.pone.0109635
Garnatje, T. [et al. 2005], Susanna, A., Garcia-Jacas, N., Vilatersana, R., & Vallès, J. 2005. A first approach to the molecular phylogeny of the genus Echinops (Asteraceae): Sectional delimitation and relationships with the genus Acantholepis Less. Folia Geobot. 40: 407-419/
https://doi.org/10.1007/BF02804288
Gary A. Secor, Viviana Rivera-Varas, Daniela S. Christ, Febina M. Mathew, Mohamed F.R. Khan, Mark Varrelmann, Melvin D. Bolton, 2014, 'Characterization of Fusarium secorum, a new species causing Fusarium yellowing decline of sugar beet in north central USA', Fungal Biology, vol. 118, no. 9-10, pp. 764-775
https://doi.org/10.1016/j.funbio.2014.06.001
Garzón-Orduña, I. J., Menchaca-Armenta, I., Contreras-Ramos, A., Liu, X., & Winterton, S. L. (2016). The phylogeny of brown lacewings (Neuroptera: Hemerobiidae) reveals multiple reductions in wing venation. BMC Evolutionary Biology, 16(1). https://doi.org/10.1186/s12862-016-0746-5
https://doi.org/10.1186/s12862-016-0746-5
Gauld, I. D., & Dubois, J. (2006). Phylogeny of thePolysphinctagroup of genera (Hymenoptera: Ichneumonidae; Pimplinae): a taxonomic revision of spider ectoparasitoids. Systematic Entomology, 31(3), 529–564. Portico. https://doi.org/10.1111/j.1365-3113.2006.00334.x
https://doi.org/10.1111/j.1365-3113.2006.00334.x
Gavryushkina, Alexandra, Tracy A. Heath, Daniel T. Ksepka, Tanja Stadler, David Welch, Alexei J. Drummond. 2016. Bayesian Total-Evidence Dating Reveals the Recent Crown Radiation of Penguins. Systematic Biology, p. syw060
https://doi.org/10.1093/sysbio/syw060
Gaynor, M. L., Fu, C., Gao, L., Lu, L., Soltis, D. E., & Soltis, P. S. (2023). Biogeography and ecological niche evolution in Diapensiaceae inferred from phylogenetic analysis. Journal of Systematics and Evolution, 58(5), 646–662. Portico. https://doi.org/10.1111/jse.12646
https://onlinelibrary.wiley.com/doi/10.1111/jse.12646
Ge Z., Yang Z., Zhang P., Matheny P., & Hibbett D. 2008. Flammulina species from China inferred by morphological and molecular data. Fungal Diversity, 32: 59-68.
http://www.fungaldiversity.org/fdp/sfdp/32-4.pdf
Ge, D., Gómez-Zurita, J., Chesters, D., Yang, X., & Vogler, A. P. (2012). Suprageneric systematics of flea beetles (Chrysomelidae: Alticinae) inferred from multilocus sequence data. Molecular Phylogenetics and Evolution, 62(3), 793–805. https://doi.org/10.1016/j.ympev.2011.11.028
https://doi.org/10.1016/j.ympev.2011.11.028
Ge, X., Peng, L., Vogler, A. P., Morse, J. C., Yang, L., Sun, C., & Wang, B. (2022). Massive gene rearrangements of mitochondrial genomes and implications for the phylogeny of Trichoptera (Insecta). Systematic Entomology, 48(2), 278–295. Portico. https://doi.org/10.1111/syen.12575
https://doi.org/10.1111/syen.12575
Ge, X., Zang, H., Ye, X., Peng, L., Wang, B., Lian, G., & Sun, C. (2022). Comparative Mitogenomic Analyses of Hydropsychidae Revealing the Novel Rearrangement of Protein-Coding Gene and tRNA (Trichoptera: Annulipalpia). Insects, 13(9), 759. https://doi.org/10.3390/insects13090759
https://doi.org/10.3390/insects13090759
Geraci C (2007) Phylogeny and classification of Hydropsychidae subfamilies and genera of the World (Insecta: Trichoptera). All Dissertations, 160.
https://open.clemson.edu/all_dissertations/160
German, D. A. [et al. 2009], Friesen, N., Neuffer, B., Al-Shehbaz, I. A., & Hurka, H. 2009. Contribution to ITS phylogeny of the Brassicaceae, with special reference to some Asian taxa. Plant Syst. Evol. 283: 33-56.
https://doi.org/10.1007/s00606-009-0213-5
Germann, C., Wimmer, C., & Bernasconi, M. V. (2011). Molecular data sheds light on the classification of long-legged flies (Diptera:Dolichopodidae). Invertebrate Systematics, 25(4), 303. https://doi.org/10.1071/is11029
https://doi.org/10.1071/is11029
Gernandt D., & Stone J. 1999. Phylogenetic analysis of nuclear ribosomal DNA places the nematode parasite, Drechmeria coniospora, in Clavicipitaceae. Mycologia, 91(6): 993-1000.
https://doi.org/10.2307/3761630
Gernandt D.S., Holman G., Campbell C., Parks M., Mathews S., Raubeson L., Liston A., Stockey R., & Rothwell G. 2016. Phylogenetics of extant and fossil Pinaceae: methods for increasing topological stability. Botany, .
https://doi.org/10.1139/cjb-2016-0064
Gernandt, David S., Aaron Liston, and Daniel Piñero. "Phylogenetics of Pinus subsections Cembroides and Nelsoniae inferred from cpDNA sequences." Systematic Botany 28.4 (2003): 657-673.
https://doi.org/10.1043/02-63.1
Ghanavi, H. R., Chazot, N., Sanmartín, I., Murillo‐Ramos, L., Duchêne, S., Sihvonen, P., Brehm, G., & Wahlberg, N. (2024). Region‐specific diversification dynamics and biogeographic history of one of the most diverse families of insects. Systematic Entomology, 50(1), 206–220. Portico. https://doi.org/10.1111/syen.12651
https://doi.org/10.1111/syen.12651
Ghanavi, H. R., Rahimi, P., Tavana, M., Rezaei Tavabe, K., Jouladeh-Roudbar, A., & Doadrio, I. (2023). The evolutionary journey of freshwater crabs of the genus Potamon (Decapoda: Brachyura: Potamidae). Molecular Phylogenetics and Evolution, 180, 107690. https://doi.org/10.1016/j.ympev.2022.107690
https://doi.org/10.1016/j.ympev.2022.107690
Ghanavi, H. R., Twort, V., Hartman, T. J., Zahiri, R., & Wahlberg, N. (2022). The (non) accuracy of mitochondrial genomes for family‐level phylogenetics in Erebidae (Lepidoptera). Zoologica Scripta, 51(6), 695–707. Portico. https://doi.org/10.1111/zsc.12559
https://doi.org/10.1111/zsc.12559
Ghebretinsae, A. G., Thulin, M., & Barber, J. C. (2007). Relationships of cucumbers and melons unraveled: molecular phylogenetics of Cucumis and related genera (Benincaseae, Cucurbitaceae). American journal of botany, 94(7), 1256-1266.
https://doi.org/10.3732/ajb.94.7.1256
Gibb, G. C., & Shepherd, L. D. (2022). Recent evolution of extreme sexual dimorphism in the huia (Heteralocha acutirostris; Callaeidae). Molecular Phylogenetics and Evolution, 175, 107575. https://doi.org/10.1016/j.ympev.2022.107575
https://doi.org/10.1016/j.ympev.2022.107575
Gibb, Gillian C., Fabien L. Condamine, Melanie Kuch, Jacob Enk, Nadia Moraes-Barros, Mariella Superina, Hendrik N. Poinar, Frédéric Delsuc. 2015. Shotgun mitogenomics provides a reference phylogenetic framework and timescale for living Xenarthrans. Molecular Biology and Evolution 33 (3): 621-642
https://doi.org/10.1093/molbev/msv250
Gibb, Gillian C., Ryan England, Gerrit Hartig, P.A. (Trish) McLenachan, Briar L. Taylor Smith, Bennet J. McComish, Alan Cooper, David Penny. 2015. New Zealand passerines help clarify the diversification of major songbird lineages during the Oligocene. Genome Biology and Evolution 7 (11): 2983-2995.
https://doi.org/10.1093/gbe/evv196
Gibbs, J., Brady, S. G., Kanda, K., & Danforth, B. N. (2012). Phylogeny of halictine bees supports a shared origin of eusociality for Halictus and Lasioglossum (Apoidea: Anthophila: Halictidae). Molecular Phylogenetics and Evolution, 65(3), 926–939. https://doi.org/10.1016/j.ympev.2012.08.013
https://doi.org/10.1016/j.ympev.2012.08.013
Gibson, J. F., Skevington, J. H., & Kelso, S. (2010). Placement of Conopidae (Diptera) within Schizophora based on mtDNA and nrDNA gene regions. Molecular Phylogenetics and Evolution, 56(1), 91–103. https://doi.org/10.1016/j.ympev.2010.03.026
https://doi.org/10.1016/j.ympev.2010.03.026
Gibson, Rosemary, Allan Baker. 2012. Multiple gene sequences resolve phylogenetic relationships in the shorebird suborder Scolopaci (Aves: Charadriiformes). Molecular Phylogenetics and Evolution 64 (1): 66-72
https://doi.org/10.1016/j.ympev.2012.03.008
Gillespie E.L., & Kron K.A. 2010. Molecular phylogenetic relationships and a revised classification of the subfamily Ericoideae (Ericaceae). Molecular Phylogenetics and Evolution, 56: 343-354.
https://doi.org/10.1016/j.ympev.2010.02.028
Gillespie, J. J., Tallamy, D. W., Riley, E. G., & Cognato, A. I. (2008). Molecular phylogeny of rootworms and related galerucine beetles (Coleoptera: Chrysomelidae). Zoologica Scripta, 37(2), 195–222. Portico. https://doi.org/10.1111/j.1463-6409.2007.00320.x
https://doi.org/10.1111/j.1463-6409.2007.00320.x
Gimeno, C., Belshaw, R., & Quicke, D. L. J. (1997). Phylogenetic relationships of the Alysiinae/Opiinae (Hymenoptera: Braconidae) and the utility of cytochrome b, 16S and 28S D2 rRNA. Insect Molecular Biology, 6(3), 273–284. Portico. https://doi.org/10.1046/j.1365-2583.1997.00181.x
https://doi.org/10.1046/j.1365-2583.1997.00181.x
Gimmel, M. L., Bocakova, M., Gunter, N. L., & Leschen, R. A. B. (2019). Comprehensive phylogeny of the Cleroidea (Coleoptera: Cucujiformia). Systematic Entomology, 44(3), 527–558. Portico. https://doi.org/10.1111/syen.12338
https://doi.org/10.1111/syen.12338
Givnish, T. J. , M. H. J. Barfuss, B. V. Ee, R. Riina, K. Schulte, R. Horres, P. A. Gonsiska, R. S. Jabaily, D. M. Crayn, J. A. C. Smith, K. Winter, G. K. Brown, T. M. Evans, B. K. Holst, H. Luther, W. Till, G. Zizka, P. E. Berry, K. J. Sytsma. 2011. Phylogeny, adaptive radiation, and historical biogeography in Bromeliaceae: Insights from an eight-locus plastid phylogeny. American Journal of Botany 98 (5): 872-895
https://doi.org/10.3732/ajb.1000059
Givnish, Thomas J., Mercedes Ames, Joel R. McNeal, Michael R. McKain, P. Roxanne Steele, Claude W. dePamphilis, Sean W. Graham, J. Chris Pires, Dennis W. Stevenson, Wendy B. Zomlefer, Barbara G. Briggs, Melvin R. Duvall, Michael J. Moore, J. Michael Heaney, Douglas E. Soltis, Pamela S. Soltis, Kevin Thiele, James H. Leebens-Mack. 2010. Assembling the Tree of the Monocotyledons: Plastome Sequence Phylogeny and Evolution of Poales 1. Annals of the Missouri Botanical Garden 97 (4): 584-616
https://doi.org/10.3417/2010023
Glenner H, Lützen J, Takahashi T (2003) Molecular and morphological evidence for a monophyletic clade of asexually reproducing rhizocephala: Polyascus, new genus (cirripedia). Journal of Crustacean Biology 23, 548-557.
https://doi.org/10.1651/C-2361
Glenner, Henrik, Martin Bay Hebsgaard. 2006. Phylogeny and evolution of life history strategies of the Parasitic Barnacles (Crustacea, Cirripedia, Rhizocephala). Molecular Phylogenetics and Evolution 41 (3): 528-538.
https://doi.org/10.1016/j.ympev.2006.06.004
Glon, M. G., Broe, M. B., Crandall, K. A., Daly, M., Kong, S., Thoma, R. F., & Freudenstein, J. V. (2022). Anchored hybrid enrichment resolves the phylogeny ofLacunicambarusHobbs, 1969 (Decapoda: Astacidea: Cambaridae). Journal of Crustacean Biology, 42(1). https://doi.org/10.1093/jcbiol/ruab073
https://doi.org/10.1093/jcbiol/ruab073
Godeiro, N. N., Ding, Y., Cipola, N. G., Jantarit, S., Bellini, B. C., & Zhang, F. (2022). Phylogenomics and systematics of Entomobryoidea (Collembola): marker design, phylogeny and classification. Cladistics, 39(2), 101–115. Portico. https://doi.org/10.1111/cla.12521
https://doi.org/10.1111/cla.12521
Goetsch, L., Eckert, A. J., & Hall, B. D. (2005). The molecular systematics of Rhododendron (Ericaceae): a phylogeny based upon RPB2 gene sequences. Systematic Botany, 30(3), 616-626.
https://doi.org/10.1600/0363644054782170
Gohli, J., Kirkendall, L. R., Smith, S. M., Cognato, A. I., Hulcr, J., & Jordal, B. H. (2017). Biological factors contributing to bark and ambrosia beetle species diversification. Evolution, 71(5), 1258–1272. Portico. https://doi.org/10.1111/evo.13219
https://doi.org/10.1111/evo.13219
Gomes, L. R. P., Souza, D. de S., & de Carvalho, C. J. B. (2021). First insights into the evolution of neotropical anthomyiid flies (Diptera: Anthomyiidae). Systematics and Biodiversity, 19(7), 724–737. https://doi.org/10.1080/14772000.2021.1914765
https://doi.org/10.1080/14772000.2021.1914765
Gonzalez V.H., & Griswold T.L. 2013. Wool carder bees of the genus Anthidium in the Western Hemisphere (Hymenoptera: Megachilidae): diversity, host plant associations, phylogeny, and biogeography. Zoological Journal of the Linnean Society, .
https://doi.org/10.1111/zoj.12017
Gonzalez, J., H. Düttmann, M. Wink. 2009. Phylogenetic relationships based on two mitochondrial genes and hybridization patterns in Anatidae. Journal of Zoology 279 (3): 310-318.
https://doi.org/10.1111/j.1469-7998.2009.00622.x
Gonzalez, Juan-Carlos T., Ben C. Sheldon, Nigel J. Collar, Joseph A. Tobias. 2013. A comprehensive molecular phylogeny for the hornbills (Aves: Bucerotidae). Molecular Phylogenetics and Evolution 67 (2): 468-483.
https://doi.org/10.1016/j.ympev.2013.02.012
González D., Rodriguez-carres M., Boekhout T., Stalpers J.A., Kuramae E.E., Nakatani A.K., Vilgalys R., & Cubeta M.A. 2016. Phylogenetic Relationships of Rhizoctonia Fungi within the Cantharellales. Fungal Biology, 120(4): 603-619.
No link provided! Try
Google Scholar or
CrossRef.org
González, D., Vovides, A. P., & Bárcenas, C. (2008). Phylogenetic relationships of the Neotropical genus Dioon (Cycadales, Zamiaceae) based on nuclear and chloroplast DNA sequence data. Systematic Botany, 33(2), 229-236.
https://doi.org/10.1600/036364408784571699
González-Obando, R., García Aldrete, A. N., Carrejo-Gironza, N., & Mendivil, J. (2018). A new genus of Ptiloneuridae, its position within the family, and descriptions of five species (Psocodea, ‘Psocoptera’). ZooKeys, 780, 11–34. https://doi.org/10.3897/zookeys.780.26753
https://doi.org/10.3897/zookeys.780.26753
Goodman, A., Abbott, J., Breinholt, J. W., Bybee, S., Frandsen, P. B., Guralnick, R., Kalkman, V. J., Kohli, M., Newton, L., & Ware, J. L. (2025). Systematics and biogeography of the Holarctic dragonfly genus Somatochlora (Anisoptera: Corduliidae). Systematic Entomology, 50(3), 585–610. Portico. https://doi.org/10.1111/syen.12672
https://doi.org/10.1111/syen.12672
Goodman, K. R., & O’Grady, P. (2013). Molecular Phylogeny and Biogeography of the Hawaiian Craneflies Dicranomyia (Diptera: Limoniidae). PLoS ONE, 8(9), e73019. https://doi.org/10.1371/journal.pone.0073019
https://doi.org/10.1371/journal.pone.0073019
Gottlieb A., Giberti G., & Poggio L. 2005. Molecular analyses of the genus Ilex (Aquifoliaceae) in southern South America, evidence from AFLP and ITS sequence data. American Journal of Botany, null.
https://doi.org/10.3732/ajb.92.2.352
Gough, H. M., Duran, D. P., Kawahara, A. Y., & Toussaint, E. F. A. (2018). A comprehensive molecular phylogeny of tiger beetles (Coleoptera, Carabidae, Cicindelinae). Systematic Entomology, 44(2), 305–321. Portico. https://doi.org/10.1111/syen.12324
https://doi.org/10.1111/syen.12324
Graham J. Slater, Jeremy A. Goldbogen, Nicholas D. Pyenson, 2017, 'Independent evolution of baleen whale gigantism linked to Plio-Pleistocene ocean dynamics', Proceedings of the Royal Society B: Biological Sciences, vol. 284, no. 1855, p. 20170546
https://doi.org/10.1098/rspb.2017.0546
Grant, Jessica, Yonas I. Tekle, O. Roger Anderson, David J. Patterson, Laura A. Katz. 2009. Multigene evidence for the placement of a heterotrophic amoeboid lineage Leukarachnion sp. among photosynthetic stramenopiles. Protist 160 (3): 376-385.
https://doi.org/10.1016/j.protis.2009.01.001
Gravendeel B., Eurlings M., Van den berg C., & Cribb P. 2004. Phylogeny of Pleione (Orchidaceae) and parentage analysis of its wild hybrids based on plastid and nrITS sequences and morphological data. Systematic Botany. (14)50-63
https://doi.org/10.1600/036364404772973988
Grealy, Alicia, Matthew Phillips, Gifford Miller, M. Thomas P. Gilbert, Jean-Marie Rouillard, David Lambert, Michael Bunce, James Haile. 2017. Eggshell palaeogenomics: Palaeognath evolutionary history revealed through ancient nuclear and mitochondrial DNA from Madagascan elephant bird (Aepyornis sp.) eggshell. Molecular Phylogenetics and Evolution 109: 151-163
https://doi.org/10.1016/j.ympev.2017.01.005
Grebennikov, V. V., & Maddison, D. R. (2004). Phylogenetic analysis of Trechitae (Coleoptera: Carabidae) based on larval morphology, with a description of first‐instarPhrypeusand a key to genera. Systematic Entomology, 30(1), 38–59. Portico. https://doi.org/10.1111/j.1365-3113.2004.00259.x
https://doi.org/10.1111/j.1365-3113.2004.00259.x
Grebennikov, V. V., Ballerio, A., Ocampo, F. C., & Scholtz, C. H. (2004). Larvae of Ceratocanthidae and Hybosoridae (Coleoptera: Scarabaeoidea): study of morphology, phylogenetic analysis and evidence of paraphyly of Hybosoridae. Systematic Entomology, 29(4), 524–543. Portico. https://doi.org/10.1111/j.0307-6970.2004.00257.x
https://doi.org/10.1111/j.0307-6970.2004.00257.x
Green, A. F., Ramsey, T. S., & Ramsey, J. (2011). Phylogeny and biogeography of ivies (Hedera spp., Araliaceae), a polyploid complex of woody vines. Systematic Botany, 36(4), 1114-1127.
https://doi.org/10.1600/036364411X605100
Groenewald M., Groenewald J., Braun U., & Crous P. 2005. Host range of Cercospora apii and C. beticola, and description of C. apiicola, a novel species from celery. Mycologia, 98: 275-285.
https://doi.org/10.3852/mycologia.98.2.275
Grubisha L., Trappe J., Molina R., & Spatafora J. 2002. Biology of the ectomycorrhizal genus Rhizopogon. VI. Re-examination of infrageneric relationships inferred from phylogenetic analyses of ITS sequences. Mycologia, 94(4): 607-619.
https://doi.org/10.2307/3761712
Gruenstaeudl M., Urtubey E., Jansen R., Samuel R., Barfuss M., & Stuessy T. 2009. Phylogeny of Barnadesioideae (Asteraceae) inferred from DNA sequence data and morphology. Molecular Phylogenetics and Evolution, 51(3): 572-587.
https://doi.org/10.1016/j.ympev.2009.01.023
Gruenstaeudl, M., Santos‐Guerra, A., & Jansen, R. K. (2012). Phylogenetic analyses of Tolpis Adans.(Asteraceae) reveal patterns of adaptive radiation, multiple colonization and interspecific hybridization. Cladistics.1 (2012) 1–19
https://doi.org/10.1111/cla.12005
Grum-grzhimaylo A.A., Debets A.J., Van diepeningen A.D., Georgieva M.L., & Bilanenko E.N. 2013. Sodiomyces alkalinus, a new holomorphic alkaliphilic ascomycete within the Plectosphaerellaceae. Persoonia, 31: 147-158.
https://doi.org/10.3767/003158513x673080
Gryzenhout M., Myburg H., Rodas C., Wingfield B., & Wingfield M.J. 2006. Aurapex penicillata gen. sp. nov. from native Miconia theaezans and Tibouchina spp. in Colombia. Mycologia, 98: 105-115.
https://doi.org/10.3852/mycologia.98.1.105
Gryzenhout, M., Myburg H., Wingfield B., & Wingfield M.J. 2006. Cryphonectriaceae (Diaporthales), a new family including Cryphonectria, Endothia, Chrysoporthe and allied genera. Mycologia 98: 239-249.
https://doi.org/10.3852/mycologia.98.2.239
Grzywacz, A., Trzeciak, P., Wiegmann, B. M., Cassel, B. K., Pape, T., Walczak, K., Bystrowski, C., Nelson, L., & Piwczyński, M. (2021). Towards a new classification of Muscidae (Diptera): a comparison of hypotheses based on multiple molecular phylogenetic approaches. Systematic Entomology, 46(3), 508–525. Portico. https://doi.org/10.1111/syen.12473
https://doi.org/10.1111/syen.12473
Grünig C., Duo A., Sieber T., & Holdenrieder O. 2008. Assignment of species rank to six reproductively isolated cryptic species of the Phialocephala fortinii s.l. - Acephala applanata species complex. Mycologia, 100(1): 47-67.
https://doi.org/10.3852/mycologia.100.1.47
Guan Z, Han B, Vierstraete A, Dumont HJ (2012) Additions and refinements to the molecular phylogeny of the Calopteryginae Sl (Zygoptera: Calopterygidae). Odonatologica, 41, 17-24.
http://hdl.handle.net/1854/LU-5808847
Guan, B., Guo, H., & Zhou, Z. (2016). Illumina next-generation sequencing reveals the mitochondrial genome of Ducetia japonica (Orthoptera: Tettigoniidae). Mitochondrial DNA Part B, 1(1), 361–362. https://doi.org/10.1080/23802359.2016.1168717
https://doi.org/10.1080/23802359.2016.1168717
Guan, J.-Y., Zhang, Z.-Y., Cao, Y.-R., Xu, X.-D., Storey, K. B., Yu, D.-N., & Zhang, J.-Y. (2021). The complete mitochondrial genome of Choroterpes (Euthralus) yixingensis (Ephemeroptera: Leptophlebiidae) and its mitochondrial protein-coding gene expression under imidacloprid stress. Gene, 800, 145833. https://doi.org/10.1016/j.gene.2021.145833
https://doi.org/10.1016/j.gene.2021.145833
Guillaume Chomicki, Philip S. Ward, Susanne S. Renner, 2015, 'Macroevolutionary assembly of ant/plant symbioses:Pseudomyrmexants and their ant-housing plants in the Neotropics', Proceedings of the Royal Society B: Biological Sciences, vol. 282, no. 1819, p. 20152200
https://doi.org/10.1098/rspb.2015.2200
Guillemin M., Akki S., Givernaud T., Mouradi A., Valero M., & Destombe C. 2008. Molecular characterisation and development of rapid molecular methods to identify species of Gracilariaceae from the Atlantic coast of Morocco. Aquatic Botany,Volume 89, Issue 3, October 2008, Pages 324–330
https://doi.org/10.1016/j.aquabot.2008.03.008,
Guillon, J. M. (2007). Molecular phylogeny of horsetails (Equisetum) including chloroplast atpB sequences. Journal of plant research, 120(4), 569-574.
https://doi.org/10.1007/s10265-007-0088-x
Guillon, J., Guery L., Hulin V., & Girondot M. 2012. A large phylogeny of turtles (Testudines) using molecular data. Contributions to Zoology 81 (3): 147-158.
http://www.repository.naturalis.nl/record/421559
Gunter, N. L., Levkaničová, Z., Weir, T. H., Ślipiński, A., Cameron, S. L., & Bocak, L. (2014). Towards a phylogeny of the Tenebrionoidea (Coleoptera). Molecular Phylogenetics and Evolution, 79, 305–312. https://doi.org/10.1016/j.ympev.2014.05.028
https://doi.org/10.1016/j.ympev.2014.05.028
Guo, Y.-L., & Ge, S. 2005. Molecular phylogeny of Oryzeae (Poaceae) based on DNA sequences from chloroplast, mitochondrial, and nuclear genomes. American J. Bot. 92: 1548-1558.
https://doi.org/10.3732/ajb.92.9.1548
Gustafson, G. T., Prokin, A. A., Bukontaite, R., Bergsten, J., & Miller, K. B. (2017). Tip-dated phylogeny of whirligig beetles reveals ancient lineage surviving on Madagascar. Scientific Reports, 7(1). https://doi.org/10.1038/s41598-017-08403-1
https://doi.org/10.1038/s41598-017-08403-1
Gustavo Ramos, Haroldo Cavalcante de Lima, Gerhard Prenner, Luciano Paganucci de Queiroz, Charles E. Zartman, Domingos Cardoso, 2016, 'Molecular systematics of the Amazonian genus Aldina , a phylogenetically enigmatic ectomycorrhizal lineage of papilionoid legumes', Molecular Phylogenetics and Evolution, vol. 97, pp. 11-18
https://doi.org/10.1016/j.ympev.2015.12.017
GÓMEZ‐ZURITA, J., & CARDOSO, A. (2013). Systematics of the New <scp>C</scp>aledonian endemic genus Taophila<scp>H</scp>eller (<scp>C</scp>oleoptera: <scp>C</scp>hrysomelidae, <scp>E</scp>umolpinae) combining morphological, molecular and ecological data, with description of two new species. Systematic Entomology, 39(1), 111–126. Portico. https://doi.org/10.1111/syen.12038
https://doi.org/10.1111/syen.12038
Gómez F., Moreira D., & López-garcía P. 2009. Neoceratium gen. nov., a New Genus for All Marine Species Currently Assigned to Ceratium (Dinophyceae). Protist, 161(1): 35-54.
https://doi.org/10.1016/j.protis.2009.06.004
Gómez-Zurita, J., Hunt, T., Kopliku, F., & Vogler, A. P. (2007). Recalibrated Tree of Leaf Beetles (Chrysomelidae) Indicates Independent Diversification of Angiosperms and Their Insect Herbivores. PLoS ONE, 2(4), e360. https://doi.org/10.1371/journal.pone.0000360
https://doi.org/10.1371/journal.pone.0000360
Gómez-Zurita, J., Jolivet, P., & Vogler, A. P. (2005). Molecular systematics of Eumolpinae and the relationships with Spilopyrinae (Coleoptera, Chrysomelidae). Molecular Phylogenetics and Evolution, 34(3), 584–600. https://doi.org/10.1016/j.ympev.2004.11.022
https://doi.org/10.1016/j.ympev.2004.11.022
Gómez‐Zurita, J., & Cardoso, A. (2021). Molecular systematics, higher‐rank classification and Gondwanan origins of Cryptocephalinae leaf beetles. Zoologica Scripta, 50(5), 592–615. Portico. https://doi.org/10.1111/zsc.12501
https://doi.org/10.1111/zsc.12501
H. Urbina, R. Frank, M. Blackwell, 2012, 'Scheffersomyces cryptocercus: a new xylose-fermenting yeast associated with the gut of wood roaches and new combinations in the Sugiyamaella yeast clade', Mycologia, vol. 105, no. 3, pp. 650-660
https://doi.org/10.3852/12-094
HARDY, N. B., GULLAN, P. J., & HODGSON, C. J. (2008). A subfamily‐level classification of mealybugs (Hemiptera: Pseudococcidae) based on integrated molecular and morphological data. Systematic Entomology, 33(1), 51–71. Portico. https://doi.org/10.1111/j.1365-3113.2007.00408.x
https://doi.org/10.1111/j.1365-3113.2007.00408.x
HARUYAMA, N., MOCHIZUKI, A., DUELLI, P., NAKA, H., & NOMURA, M. (2008). Green lacewing phylogeny, based on three nuclear genes (Chrysopidae, Neuroptera). Systematic Entomology, 33(2), 275–288. Portico. https://doi.org/10.1111/j.1365-3113.2008.00418.x
https://doi.org/10.1111/j.1365-3113.2008.00418.x
HEMP, C., KEHL, S., HELLER, K., WOLFGANG WÄGELE, J., & HEMP, A. (2012). Ecological adaptations of grassland‐inhabiting flightless Orthoptera: Fulvoscirtes and Acanthoscirtes, two new genera of African Karniellina (Orthoptera, Tettigoniidae, Conocephalinae, Conocephalini). Systematic Entomology, 37(2), 387–407. Portico. https://doi.org/10.1111/j.1365-3113.2012.00622.x
https://doi.org/10.1111/j.1365-3113.2012.00622.x
HEMP, C., KEHL, S., SCHULTZ, O., WÄGELE, J. W., & HEMP, A. (2014). Climatic fluctuations and orogenesis as motors for speciation in <scp>E</scp>ast <scp>A</scp>frica: case study on Parepistaurus<scp>K</scp>arsch, 1896 (<scp>O</scp>rthoptera). Systematic Entomology, 40(1), 17–34. Portico. https://doi.org/10.1111/syen.12092
https://doi.org/10.1111/syen.12092
HERMES, M. G., & MELO, G. A. R. (2008). Revision and cladistic analysis of the eumenine wasp genusPseudodynerusde Saussure (Hymenoptera, Vespidae, Eumeninae). Systematic Entomology, 33(2), 361–394. Portico. https://doi.org/10.1111/j.1365-3113.2008.00421.x
https://doi.org/10.1111/j.1365-3113.2008.00421.x
HERREID, J. S., & HERATY, J. M. (2017). Hitchhikers at the dinner table: a revisionary study of a group of ant parasitoids (
<scp>H</scp>
ymenoptera:
<scp>E</scp>
ucharitidae) specializing in the use of extrafloral nectaries for host access. Systematic Entomology, 42(1), 204–229. Portico. https://doi.org/10.1111/syen.12206
https://doi.org/10.1111/syen.12206
HOCHKIRCH, A., & GÖRZIG, Y. (2009). Colonization and speciation on volcanic islands: phylogeography of the flightless grasshopper genus Arminda (Orthoptera, Acrididae) on the Canary Islands. Systematic Entomology, 34(1), 188–197. Portico. https://doi.org/10.1111/j.1365-3113.2008.00449.x
https://doi.org/10.1111/j.1365-3113.2008.00449.x
Habibu Aliyu, Pedro Lebre, Jochen Blom, Don Cowan, Pieter De Maayer, 2016, 'Phylogenomic re-assessment of the thermophilic genus Geobacillus', Systematic and Applied Microbiology, vol. 39, no. 8, pp. 527-533
https://doi.org/10.1016/j.syapm.2016.09.004
Hackett, S. J., R. T. Kimball, S. Reddy, R. C. K. Bowie, E. L. Braun, M. J. Braun, J. L. Chojnowski, W. A. Cox, K.-L. Han, J. Harshman, C. J. Huddleston, B. D. Marks, K. J. Miglia, W. S. Moore, F. H. Sheldon, D. W. Steadman, C. C. Witt, T. Yuri. 2008. A Phylogenomic Study of Birds Reveals Their Evolutionary History. Science 320 (5884): 1763-1768.
https://doi.org/10.1126/science.1157704
Halleen F., Schroers H., Groenewald J., & Crous P. 2004. Novel species of Cylindrocarpon (Neonectria) and Campylocarpon gen. nov. associated with black foot disease of grapevines (Vitis spp.). Studies in Mycology, 50: 431-455.
No link provided! Try
Google Scholar or
CrossRef.org
Han, Kin-Lan, Mark B. Robbins, Michael J. Braun. 2010. A multi-gene estimate of phylogeny in the nightjars and nighthawks (Caprimulgidae). Molecular Phylogenetics and Evolution 55 (2): 443-453.
https://doi.org/10.1016/j.ympev.2010.01.023
Han, Kui, Yan-Ling Ji, Yong Wang, and Zhi-Wei Wang. "A Neotyphodium endophyte from Festuca myuros L. in Nanjing, China." Mycology 3, no. 3 (2012): 201-209.
No link provided! Try
Google Scholar or
CrossRef.org
Hannes Lerp, Sebastian Klaus, Stefanie Allgöwer, Torsten Wronski, Markus Pfenninger, Martin Plath, 2016, 'Phylogenetic analyses of gazelles reveal repeated transitions of key ecological traits and provide novel insights into the origin of the genus Gazella', Molecular Phylogenetics and Evolution, vol. 98, pp. 1-10
https://doi.org/10.1016/j.ympev.2016.01.012
Hansen A., Gilbert L., Simpson B., Downie S., Cervi A., & Jansen R. 2006. Phylogenetic Relationships and Chromosome Number Evolution in Passiflora. Systematic Botany, 31(1): 138-150.
https://doi.org/10.1600/036364406775971769
Harald Letsch, Brigitte Gottsberger, Jessica L. Ware, 2016, 'Not going with the flow: a comprehensive time-calibrated phylogeny of dragonflies (Anisoptera: Odonata: Insecta) provides evidence for the role of lentic habitats on diversification', Molecular Ecology, vol. 25, no. 6, pp. 1340-1353
https://doi.org/10.1111/mec.13562
Harbaugh, D. T., Oppenheimer, H. L., Wood, K. R., & Wagner, W. L. (2010). Taxonomic revision of the endangered Hawaiian red-flowered sandalwoods (Santalum) and discovery of an ancient hybrid species. Systematic botany, 35(4), 827-838.
https://doi.org/10.1600/036364410X539899
Harrington, Richard C., Brant C. Faircloth, Ron I. Eytan, W. Leo Smith, Thomas J. Near, Michael E. Alfaro, Matt Friedman. 2016. Phylogenomic analysis of carangimorph fishes reveals flatfish asymmetry arose in a blink of the evolutionary eye. BMC Evolutionary Biology 16: 224
https://doi.org/10.1186/s12862-016-0786-x
Harris, R.B., M.D. Carling, I.J. Lovette. 2014. The influence of sampling design on species tree inference: a new relationship for the New World chickadees (Aves: Poecile). Evolution 68 (2): 501-513.
https://doi.org/10.1111/evo.12280
Harris, Rebecca B., Sharon M. Birks, Adam D. Leaché. 2014. Incubator birds: biogeographical origins and evolution of underground nesting in megapodes (Galliformes: Megapodiidae). Journal of Biogeography doi: 10.1111/jbi.12357
https://doi.org/10.1111/jbi.12357
Harvey, M. G., Bravo, G. A., Claramunt, S., Cuervo, A. M., Derryberry, G. E., Battilana, J., … Derryberry, E. P. (2020). The evolution of a tropical biodiversity hotspot. Science, 370(6522), 1343–1348. doi:10.1126/science.aaz6970
https://doi.org/10.1126/science.aaz6970
Haugland R., Vesper S., & Harmon S. 2001. Phylogenetic relationships of Memnoniella and Stachybotrys species and evaluation of morphological features for Memnoniella species identification. Mycologia, 93(1): 54-65.
https://doi.org/10.2307/3761605
Havill, N. P., Campbell, C. S., Vining, T. F., LePage, B., Bayer, R. J., & Donoghue, M. J. (2008). Phylogeny and biogeography of Tsuga (Pinaceae) inferred from nuclear ribosomal ITS and chloroplast DNA sequence data. Systematic Botany, 33(3), 478-789.
https://doi.org/10.1600/036364408785679770
Hawlitschek, O., Hendrich, L., & Balke, M. (2012). Molecular phylogeny of the squeak beetles, a family with disjunct Palearctic-Australian range. Molecular Phylogenetics and Evolution, 62(1), 550–554. https://doi.org/10.1016/j.ympev.2011.09.015
https://doi.org/10.1016/j.ympev.2011.09.015
Hay, E. M., McGee, M. D., & Chown, S. L. (2022). Geographic range size and speciation in honeyeaters. BMC Ecology and Evolution, 22(1). https://doi.org/10.1186/s12862-022-02041-6
https://doi.org/10.1186/s12862-022-02041-6
Hayashi, M., & Sota, T. (2014). Quaternary donaciine beetles (Coleoptera, Chrysomelidae) in Japan: Colonization and divergence patterns inferred from fossil and molecular data. Quaternary International, 341, 255–266. https://doi.org/10.1016/j.quaint.2013.08.022
https://doi.org/10.1016/j.quaint.2013.08.022
He, Kai, Akio Shinohara, Xue-Long Jiang, Kevin L. Campbell. 2014. Multilocus phylogeny of talpine moles (Talpini, Talpidae, Eulipotyphla) and its implications for systematics. Molecular Phylogenetics and Evolution 70: 513-521.
https://doi.org/10.1016/j.ympev.2013.10.002
Heckeberg, N. S. (2020). The systematics of the Cervidae: a total evidence approach. PeerJ, 8, e8114. Portico. https://doi.org/10.7717/peerj.8114
https://doi.org/10.7717/peerj.8114
Hedtke, S.M., Patiny S., & Danforth B. 2013. The bee tree of life: a supermatrix approach to apoid phylogeny and biogeography. BMC Evolutionary Biology 13: 138.
https://doi.org/10.1186/1471-2148-13-138
Heenan, P. B., Dawson, M. I., Redmond, D. N., & Wagstaff, S. J. (2005). Relationships of the New Zealand mountain ribbonwoods (Hoheria glabrata and H. lyallii: Malvaceae), based on molecular and morphological data. New Zealand Journal of Botany, 43(2), 527-549.
https://doi.org/10.1080/0028825X.2005.9512973
Heidi Tamm, Kadri Põldmaa, 2013, 'Diversity, host associations, and phylogeography of temperate aurofusarin-producing Hypomyces/Cladobotryum including causal agents of cobweb disease of cultivated mushrooms', Fungal Biology, vol. 117, no. 5, pp. 348-367
https://doi.org/10.1016/j.funbio.2013.03.005
Heluta V., Takamatsu S., & Siahaan S. 2017. Erysiphe salmonii (Erysiphales, Ascomycota), another East Asian powdery mildew fungus introduced into Ukraine. Ukrainian Botanical Journal, 74(3): 212219.
https://doi.org/10.15407/ukrbotj74.03.212
Hennequin S., Ebihara A., Ito M., Dubuisson J.-Y. & H. Schneider. 2010. Chromosome number evolution in Hymenophyllum (Hymenophyllaceae), with special reference to the subgenus Hymenophyllum. Molecular Phylogenetics and Evolution 55: 47-59.
https://doi.org/10.1016/j.ympev.2010.01.001
Hennequin, S., Ebihara, A., Ito, M., Iwatsuki, K., & Dubuisson, J. Y. (2006). New insights into the phylogeny of the genus Hymenophyllum sl (Hymenophyllaceae): revealing the polyphyly of Mecodium. Systematic botany, 31(2), 271-284.
https://doi.org/10.1600/036364406777585775
Henrik Glenner, Jens T. Høeg, Jesper Stenderup, Alexey V. Rybakov, 2010, 'The monophyletic origin of a remarkable sexual system in akentrogonid rhizocephalan parasites: A molecular and larval structural study', Experimental Parasitology, vol. 125, no. 1, pp. 3-12
https://doi.org/10.1016/j.exppara.2009.09.019
Henrik Glenner, Philip Francis Thomsen, Alexey V. Rybakov, Bella S. Galil, Jens T. Hoeg, 2008, 'The Phylogeny of Rhizocephalan Parasites of the Genus Heterosaccus using Molecular and Larval Data (Cirripedia: Rhizocephala; Sacculinidae)', Israel Journal of Ecology & Evolution, vol. 54, no. 2, pp. 223-238
https://doi.org/10.1080/15659801.2008.10639616
Henríquez-Piskulich, P., Hugall, A. F., & Stuart-Fox, D. (2024). A supermatrix phylogeny of the world’s bees (Hymenoptera: Anthophila). Molecular Phylogenetics and Evolution, 190, 107963. https://doi.org/10.1016/j.ympev.2023.107963
https://doi.org/10.1016/j.ympev.2023.107963
Hermione T. Beckett, Sam Giles, Zerina Johanson, Matt Friedman, 2018, 'Morphology and phylogenetic relationships of fossil snake mackerels and cutlassfishes (Trichiuroidea) from the Eocene (Ypresian) London Clay Formation', Papers in Palaeontology
https://doi.org/10.1002/spp2.1221
Herrera, James P., Liliana M. Dávalos. 2016. Phylogeny and Divergence Times of Lemurs Inferred with Recent and Ancient Fossils in the Tree. Systematic Biology 65 (5): 772-791
https://doi.org/10.1093/sysbio/syw035
Hertweck K.L., & Pires J.C. 2014. Systematics and evolution of inflorescence structure in the Tradescantia alliance (Commelinaceae). Systematic Botany, 39(1): 105-116.
https://doi.org/10.1600/036364414X677991x.do10.1600/036364414X677991
Hervé, V., & Brune, A. (2017). The complete mitochondrial genomes of the higher termitesLabiotermes labralisandEmbiratermes neotenicus(Termitidae: Syntermitinae). Mitochondrial DNA Part B, 2(1), 109–110. https://doi.org/10.1080/23802359.2017.1289349
https://doi.org/10.1080/23802359.2017.1289349
Higdon J. W., Bininda-Emonds O. R. P., Beck R. M. D., Ferguson S. H. 2007. Phylogeny and divergence of the pinnipeds (Carnivora: Mammalia) assessed using a multigene dataset. BMC Evolutionary Biology 8: 216.
https://doi.org/10.1186/1471-2148-7-216
Hines H. 2008. Historical biogeography, divergence times, and diversification patterns of bumble bees (Hymenoptera: Apidae: Bombus). Systematic Biology 57(1): 58-75.
https://doi.org/10.1080/10635150801898912
Hiroki Hata, Atsushi Sogabe, Shinya Tada, Ryohei Nishimoto, Reina Nakano, Nobuhiko Kohya, Hirohiko Takeshima, Ryota Kawanishi, 2017, 'Molecular phylogeny of obligate fish parasites of the family Cymothoidae (Isopoda, Crustacea): evolution of the attachment mode to host fish and the habitat shift from saline water to freshwater', Marine Biology, vol. 164, no. 5
https://doi.org/10.1007/s00227-017-3138-5
Hirooka Y., Tanney J.B., Nguyen H., Redhead S., & Seifert K. 2017. Xerotolerant fungi in house dust: taxonomy of Spiromastix, Pseudospiromastix and Sigleria gen. nov. in Spiromastigaceae (Onygenales, Eurotiomycetes). Mycologia, 108(6): 135-156.
https://doi.org/10.3852/15-065
Hiroshi Kawai, Hideaki Sasaki, 2004, ' MORPHOLOGY, LIFE HISTORY, AND MOLECULAR PHYLOGENY OF STSCHAPOVIA FLAGELLARIS (TILOPTERIDALES, PHAEOPHYCEAE) AND THE ERECTION OF THE STSCHAPOVIACEAE FAM. NOV. ', Journal of Phycology, vol. 40, no. 6, pp. 1156-1169
https://doi.org/10.1111/j.1529-8817.2004.03153.x
Hiroto Suhara, Shuichi Kurogi, 2015, 'Cantharellus cyphelloides (Cantharellales), a new and unusual species from a Japanese evergreen broad-leaved forest', Mycological Progress, vol. 14, no. 8
https://doi.org/10.1007/s11557-015-1079-2
Hisayoshi Nozaki, Ryo Matsuzaki, Kayoko Yamamoto, Masanobu Kawachi, Fumio Takahashi, 2015, 'Delineating a New Heterothallic Species of Volvox (Volvocaceae, Chlorophyceae) Using New Strains of “Volvox africanus”', PLOS ONE, vol. 10, no. 11, p. e0142632
https://doi.org/10.1371/journal.pone.0142632
Holst-jensen A., Vralstad T., & Schumacher T. 2004. Kohninia linnaeicola - a new genus and species of the Sclerotiniaceae pathogenic to Linnaea borealis. Mycologia, 96: 136-143.
https://doi.org/10.2307/3761994
Hooper, Daniel M., Trevor D. Price. 2017. Chromosomal inversion differences correlate with range overlap in passerine birds. Nature Ecology & Evolution 1 (10): 1526-1534
https://doi.org/10.1038/s41559-017-0284-6
Hooper, Daniel M., Urban Olsson, Per Alström. 2016. The Rusty-tailed Flycatcher (Muscicapa ruficauda; Aves: Muscicapidae) is a member of the genus Ficedula. Molecular Phylogenetics and Evolution 102: 56-61
https://doi.org/10.1016/j.ympev.2016.05.036
Hoot, S. B., Taylor, W. C., & Napier, N. S. (2006). Phylogeny and biogeography of Isoëtes (Isoëtaceae) based on nuclear and chloroplast DNA sequence data. Systematic botany, 31(3), 449-460.
https://doi.org/10.1600/036364406778388511
Hosner, P. A., Braun, E. L., & Kimball, R. T. (2016). Rapid and recent diversification of curassows, guans, and chachalacas (Galliformes: Cracidae) out of Mesoamerica: Phylogeny inferred from mitochondrial, intron, and ultraconserved element sequences. Molecular Phylogenetics and Evolution, 102, 320–330. https://doi.org/10.1016/j.ympev.2016.06.006
https://doi.org/10.1016/j.ympev.2016.06.006
Hosner, Peter A. Brant C. Faircloth, Travis C. Glenn, Edward L. Braun, Rebecca T. Kimball. 2015. Avoiding missing data biases in phylogenomic inference: an empirical study in the landfowl (Aves: Galliformes). Molecular Biology and Evolution 33 (4): 1110-1125
https://doi.org/10.1093/molbev/msv347
Hoy M., & Jeyaprakash A. 2008. First divergence time estimate of spiders, scorpions, mites and ticks (Subphylum: Chelicerata) inferred from mitochondrial phylogeny. Experimental and Applied Acarology, null.
https://doi.org/10.1007/s10493-008-9203-5
Hruska, J. P., Holmes, J., Oliveros, C., Shakya, S., Lavretsky, P., McCracken, K. G., Sheldon, F. H., & Moyle, R. G. (2023). Ultraconserved elements resolve the phylogeny and corroborate patterns of molecular rate variation in herons (Aves: Ardeidae). Ornithology. https://doi.org/10.1093/ornithology/ukad005
https://doi.org/10.1093/ornithology/ukad005
Hsiu-Chin Lin, Gregory A. Kobasov, Benny K.K. Chan, 2016, 'Phylogenetic relationships of Darwin’s “Mr. Arthrobalanus”: The burrowing barnacles (Cirripedia: Acrothoracica)', Molecular Phylogenetics and Evolution
https://doi.org/10.1016/j.ympev.2016.03.016
Hsiu-Chin Lin, Jens T. Høeg, Yoichi Yusa, Benny K.K. Chan, 2015, 'The origins and evolution of dwarf males and habitat use in thoracican barnacles', Molecular Phylogenetics and Evolution, vol. 91, pp. 1-11
https://doi.org/10.1016/j.ympev.2015.04.026
Hu D., Xu X., Hou L., & Sullivan C. 2012. A new enantiornithine bird from the Lower Cretaceous of Western Liaoning, China, and its implications for early avian evolution. Journal of Vertebrate Paleontology, 32(3): 639-645.
https://doi.org/10.1080/02724634.2012.652321
Hu M., Lavin M., Wojciechowski M., & Sanderson M. 2002. Phylogenetic analysis of nuclear ribosomal ITS/5.8 S sequences in the tribe Millettieae (Fabaceae): Poecilanthe-Cyclolobium, the core Millettieae, and the Callerya group. Systematic Botany, 27: 722-733.
https://doi.org/10.1043/0363-6445-27.4.722
Huang D.I., & Friar E. 2010. Relationships in the Lupinus albifrons species complex (Fabaceae) based on two highly variable chloroplast regions. Systematic Botany, .
https://doi.org/10.1600/036364411x569543
Huang, D., & Roy K. 2013. Anthropogenic extinction threats and future loss of evolutionary history in reef corals. Ecology and Evolution, 3 (5): 1184–1193.
https://doi.org/10.1002/ece3.527
Hugall, Andrew F., Devi Stuart-Fox. 2012. Accelerated speciation in colour-polymorphic birds. Nature 485 (7400): 631-634.
https://doi.org/10.1038/nature11050
Hunter, R., Webb M., Iliffe T., & Bremer J. 2007. Phylogeny and historical biogeography of the cave-adapted shrimp genus Typhlatya (Atyidae) in the Caribbean Sea and western Atlantic. Journal of Biogeography 35 (1): 65-75.
https://doi.org/10.111/j.1365-2699.2007.01767.x
Hussam Zaher, Mario H. Yánez-Muñoz, Miguel T. Rodrigues, Roberta Graboski, Fabio A. Machado, Marco Altamirano-Benavides, Sandro L. Bonatto, Felipe G. Grazziotin, 2018, 'Origin and hidden diversity within the poorly known Galápagos snake radiation (Serpentes: Dipsadidae)', Systematics and Biodiversity, pp. 1-29
https://doi.org/10.1080/14772000.2018.1478910
Hwalran Choi, Seunggwan Shin, Sunghoon Jung, Dave J. Clarke, Seunghwan Lee, 2018, 'Molecular phylogeny of Macrosiphini (Hemiptera: Aphididae): An evolutionary hypothesis for the Pterocomma -group habitat adaptation', Molecular Phylogenetics and Evolution, vol. 121, pp. 12-22
https://doi.org/10.1016/j.ympev.2017.12.021
Hwang, W. S. and Weirauch, C. 2012, 'Evolutionary History of Assassin Bugs (Insecta: Hemiptera: Reduviidae): Insights from Divergence Dating and Ancestral State Reconstruction', PLoS ONE, vol. 7, no. 9, p. e45523
https://doi.org/10.1371/journal.pone.0045523
HÖRNSCHEMEYER, T. (2009). The species‐level phylogeny of archostematan beetles—where doMicromalthus debilisandCrowsoniella relictabelong? Systematic Entomology, 34(3), 533–558. Portico. https://doi.org/10.1111/j.1365-3113.2009.00476.x
https://doi.org/10.1111/j.1365-3113.2009.00476.x
Høeg, J. T., Noever, C., Rees, D. A., Crandall, K. A., & Glenner, H. (2020). A new molecular phylogeny-based taxonomy of parasitic barnacles (Crustacea: Cirripedia: Rhizocephala). Zoological Journal of the Linnean Society, 190(2), 632–653. doi:10.1093/zoolinnean/zlz140
https://doi.org/10.1093/zoolinnean/zlz140
Høeg, JT., Jensen P., Rees D., and Glenner, H. Parasitic barnacles and molecular data in crustacean phylogeny. In: Parasitic Crustacea: State of Knowledge and Future Trends. Edited by Nico Smit and Neil Bruce (Springer press). (2016).
http://www.springer.com/us/
Imfeld, Barker, Brumfield, Mitochondrial genomes and thousands of ultraconserved elements resolve the taxonomy and historical biogeography of the Euphonia and Chlorophonia finches (Passeriformes: Fringillidae), The Auk, Volume 137, Issue 3, 1 July 2020, ukaa016,
https://doi.org/10.1093/auk/ukaa016
Imfeld, T. S., Barker, F. K., Vázquez-Miranda, H., Chaves, J. A., Escalante, P., Spellman, G. M., & Klicka, J. (2024). Diversification and dispersal in the Americas revealed by new phylogenies of the wrens and allies (Passeriformes: Certhioidea). Ornithology, 141(2). https://doi.org/10.1093/ornithology/ukae007
https://doi.org/10.1093/ornithology/ukae007
Iole Di Capua, Fulvio Maffucci, Raimondo Pannone, Maria Grazia Mazzocchi, Elio Biffali, Alberto Amato, 2017, 'Molecular phylogeny of Oncaeidae (Copepoda) using nuclear ribosomal internal transcribed spacer (ITS rDNA)', PLOS ONE, vol. 12, no. 4, p. e0175662
https://doi.org/10.1371/journal.pone.0175662
Irby J. Lovette, Brynn V. McCleery, Amanda L. Talaba, Dustin R. Rubenstein, 2008, 'A complete species-level molecular phylogeny for the “Eurasian” starlings (Sturnidae: Sturnus, Acridotheres, and allies): Recent diversification in a highly social and dispersive avian group', Molecular Phylogenetics and Evolution, vol. 47, no. 1, pp. 251-260
https://doi.org/10.1016/j.ympev.2008.01.020
Ireland H., Kite G., Veitch N., Chase M., Schrire B., Lavin M., & Pennington R. 2010.
Biogeographic, ecological, and morphological structure of a phylogenetic analysis
of Ateleia (Swartzieae-Leguminosae) derived from combined molecular and morphological/chemical
data. Botanical Journal of the Linnean Society, 162(1): 39-53.
https://doi.org/10.1111/j.1095-8339.2009.01016
Irestedt, Martin, Knud A Jønsson, Jon Fjeldså, Les Christidis, Per GP Ericson. 2009. An unexpectedly long history of sexual selection in birds-of-paradise. BMC Evolutionary Biology 9 (1): 235
https://doi.org/10.1186/1471-2148-9-235
Irisarri I., Eernisse D.J., & Zardoya R. 2014. Molecular phylogeny of Acanthochitonina (Mollusca: Polyplacophora: Chitonida): three new mitochondrial genomes, rearranged gene orders and systematics. Journal of Natural History, .
No link provided! Try
Google Scholar or
CrossRef.org
Irisarri, I., Mauro, D. S., Abascal, F., Ohler, A., Vences, M., & Zardoya, R. (2012). The origin of modern frogs (Neobatrachia) was accompanied by acceleration in mitochondrial and nuclear substitution rates. BMC Genomics, 13(1). doi:10.1186/1471-2164-13-626
https://doi.org/10.1186/1471-2164-13-626
Ishan Agarwal, K. Praveen Karanth, 2015, 'A phylogeny of the only ground-dwelling radiation of Cyrtodactylus (Squamata, Gekkonidae): diversification of Geckoella across peninsular India and Sri Lanka', Molecular Phylogenetics and Evolution, vol. 82, pp. 193-199
https://doi.org/10.1016/j.ympev.2014.09.016
Ishikawa N., Yokoyama J., & Tsukaya H. 2009. Molecular evidence of reticulate evolution in the subgenus Plantago (Plantaginaceae). American Journal of Botany, 96(9): 1627-1635.
https://doi.org/10.3732/ajb.0800400
Islam, S., Peart, C., Kehlmaier, C., Sun, Y.-H., Lei, F., Dahl, A., Klemroth, S., Alexopoulou, D., del Mar Delgado, M., Laiolo, P., Carlos Illera, J., Dirren, S., Hille, S., Lkhagvasuren, D., Töpfer, T., Kaiser, M., Gebauer, A., Martens, J., Paetzold, C., & Päckert, M. (2024). Museomics help resolving the phylogeny of snowfinches (Aves, Passeridae, Montifringilla and allies). Molecular Phylogenetics and Evolution, 198, 108135. https://doi.org/10.1016/j.ympev.2024.108135
https://doi.org/10.1016/j.ympev.2024.108135
Ivan Fiala, Marie Hlavničková, Alena Kodádková, Mark A. Freeman, Pavla Bartošová-Sojková, Stephen D. Atkinson, 2015, 'Evolutionary origin of Ceratonova shasta and phylogeny of the marine myxosporean lineage', Molecular Phylogenetics and Evolution, vol. 86, pp. 75-89
https://doi.org/10.1016/j.ympev.2015.03.004
Ivan Prates, Miguel Trefaut Rodrigues, Paulo Roberto Melo-Sampaio, Ana Carolina Carnaval, 2015, 'Phylogenetic relationships of Amazonian anole lizards (Dactyloa): Taxonomic implications, new insights about phenotypic evolution and the timing of diversification', Molecular Phylogenetics and Evolution, vol. 82, pp. 258-268
https://doi.org/10.1016/j.ympev.2014.10.005
J. L. Alves, J. H. C. Woudenberg, L. L. Duarte, P. W. Crous, R. W. Barreto, 2013, 'Reappraisal of the genus Alternariaster (Dothideomycetes)', Persoonia - Molecular Phylogeny and Evolution of Fungi, vol. 31, no. 1, pp. 77-85
https://doi.org/10.3767/003158513x669030
J. W. Spatafora, Y. Chang, G. L. Benny, K. Lazarus, M. E. Smith, M. L. Berbee, G. Bonito, N. Corradi, I. Grigoriev, A. Gryganskyi, T. Y. James, K. ODonnell, R. W. Roberson, T. N. Taylor, J. Uehling, R. Vilgalys, M. M. White, J. E. Stajich, 2016, 'A phylum-level phylogenetic classification of zygomycete fungi based on genome-scale data', Mycologia, vol. 108, no. 5, pp. 1028-1046
https://doi.org/10.3852/16-042
JANET M. BRADFORD-GRIEVE, LEOCADIO BLANCO-BERCIAL, GEOFFREY A. BOXSHALL, 2017, 'Revision of Family Megacalanidae (Copepoda: Calanoida)', Zootaxa, vol. 4229, no. 1, p. 1
https://doi.org/10.11646/zootaxa.4229.1.1
JESSICA L. WARE, ERIK PILGRIM, MICHAEL L. MAY, THOMAS W. DONNELLY, KENNETH TENNESSEN, 2016, 'Phylogenetic relationships of North American Gomphidae and their close relatives', Systematic Entomology, vol. 42, no. 2, pp. 347-358
https://doi.org/10.1111/syen.12218
JOHANSON, K. A., & KEIJSNER, M. (2008). Phylogeny of the Helicophidae (Trichoptera), with emphasis on the New Caledonian species of Helicopha. Systematic Entomology, 33(3), 451–483. Portico. https://doi.org/10.1111/j.1365-3113.2008.00423.x
https://doi.org/10.1111/j.1365-3113.2008.00423.x
JULIE FEINSTEIN, XIAOJUN YANG, SHOU-HSIEN LI, 2007, 'Molecular systematics and historical biogeography of the Black-browed Barbet species complex (Megalaima oorti)', Ibis, vol. 150, no. 1, pp. 40-49
https://doi.org/10.1111/j.1474-919x.2007.00732.x
JUNG, S., & LEE, S. (2011). Correlated evolution and Bayesian divergence time estimates of the Cimicoidea (Heteroptera: Cimicomorpha) reveal the evolutionary history. Systematic Entomology, 37(1), 22–31. Portico. https://doi.org/10.1111/j.1365-3113.2011.00596.x
https://doi.org/10.1111/j.1365-3113.2011.00596.x
Jabaily R.S., & Sytsma K.J. 2010. Phylogenetics of Puya (Bromeliaceae): Placement, Major Lineages, and Evolution of Chilean Species. American Journal of Botany, 97(2): 337-356.
https://doi.org/10.3732/ajb.0900107
Jackson J.A., Linse K.T., Whittle R., & Griffiths H. 2015. The evolutionary origins of the Southern Ocean philobryid bivalves: hidden biodiversity, ancient persistence. PLoS One, .
https://doi.org/10.1371/journal.pone.0121198
Jaklitsch W.M. 2009. European species of Hypocrea Part I. Studies in Mycology, 63(1): 1-91.
https://doi.org/10.3114/sim.2009.63.01
Jaklitsch W.M., & Voglmayr H. 2011. Nectria eustromatica sp. nov., an exceptional species with a hypocreaceous stroma. Mycologia, 103(1): 209-218.
https://doi.org/10.3852/10
Jaklitsch W.M., Komon M., Kubicek C., & Druzhinina I. 2006. Hypocrea voglmayrii sp. nov. from the Austrian Alps represents a new phylogenetic clade in Hypocrea/Trichoderma. Mycologia, null.
https://doi.org/10.3852/mycologia.97.6.1365
Jaklitsch, Walter M., Christian P. Kubicek, and Irina S. Druzhinina. "Three European species of Hypocrea with reddish brown stromata and green ascospores." Mycologia 100, no. 5 (2008): 796-815.
https://doi.org/10.3852/08-039
Jaklitsch, Walter M., Monika Komon, Christian P. Kubicek, and Irina S. Druzhinina. "Hypocrea crystalligena sp. nov., a common European species with a white-spored Trichoderma anamorph." Mycologia 98, no. 3 (2006): 499-513.
https://doi.org/10.3852/mycologia.98.3.499
Janaina Rigonato, Angela D. Kent, Danillo O. Alvarenga, Fernando D. Andreote, Raphael M. Beirigo, Pablo Vidal-Torrado, Marli F. Fiore, 2013, 'Drivers of cyanobacterial diversity and community composition in mangrove soils in south-east Brazil', Environmental Microbiology, vol. 15, no. 4, pp. 1103-1114
https://doi.org/10.1111/j.1462-2920.2012.02830.x
Janaina Rigonato, Danillo Oliveira Alvarenga, Fernando Dini Andreote, Armando Cavalcante Franco Dias, Itamar Soares Melo, Angela Kent, Marli Fátima Fiore, 2012, 'Cyanobacterial diversity in the phyllosphere of a mangrove forest', FEMS Microbiology Ecology, vol. 80, no. 2, pp. 312-322
https://doi.org/10.1111/j.1574-6941.2012.01299.x
Janet C. Buckner, Jessica W. Lynch Alfaro, Anthony B. Rylands, Michael E. Alfaro, 2015, 'Biogeography of the marmosets and tamarins (Callitrichidae)', Molecular Phylogenetics and Evolution, vol. 82, pp. 413-425
https://doi.org/10.1016/j.ympev.2014.04.031
Janet M. Bradford-Grieve, Geoffrey A. Boxshall, Leocadio Blanco-Bercial, 2014, 'Revision of basal calanoid copepod families, with a description of a new species and genus of Pseudocyclopidae', Zoological Journal of the Linnean Society, vol. 171, no. 3, pp. 507-533
https://doi.org/10.1111/zoj.12141
Janies, D., Voight, J., Daly, M., (2011) Echinoderm phylogeny including Xyloplax, a progenetic asteroid. Systematic Biology 604 (4): 420-438.
https://doi.org/10.1093/sysbio/syr044
Jarvis, E. D., S. Mirarab, A. J. Aberer, B. Li, P. Houde, C. Li, S. Y. W. Ho, B. C. Faircloth, B. Nabholz, J. T. Howard, A. Suh, C. C. Weber, R. R. da Fonseca, J. Li, F. Zhang, H. Li, L. Zhou, N. Narula, L. Liu, G. Ganapathy, B. Boussau, M. S. Bayzid, V. Zavidovych, S. Subramanian, T. Gabaldon, S. Capella-Gutierrez, J. Huerta-Cepas, B. Rekepalli, K. Munch, M. Schierup, B. Lindow, W. C. Warren, D. Ray, R. E. Green, M. W. Bruford, X. Zhan, A. Dixon, S. Li, N. Li, Y. Huang, E. P. Derryberry, M. F. Bertelsen, F. H. Sheldon, R. T. Brumfield, C. V. Mello, P. V. Lovell, M. Wirthlin, M. P. C. Schneider, F. Prosdocimi, J. A. Samaniego, A. M. V. Velazquez, A. Alfaro-Nunez, P. F. Campos, B. Petersen, T. Sicheritz-Ponten, A. Pas, T. Bailey, P. Scofield, M. Bunce, D. M. Lambert, Q. Zhou, P. Perelman, A. C. Driskell, B. Shapiro, Z. Xiong, Y. Zeng, S. Liu, Z. Li, B. Liu, K. Wu, J. Xiao, X. Yinqi, Q. Zheng, Y. Zhang, H. Yang, J. Wang, L. Smeds, F. E. Rheindt, M. Braun, J. Fjeldsa, L. Orlando, F. K. Barker, K. A. Jonsson, W. Johnson, K.-P. Koepfli, S. O'Brien, D. Haussler, O. A. Ryder, C. Rahbek, E. Willerslev, G. R. Graves, T. C. Glenn, J. McCormack, D. Burt, H. Ellegren, P. Alstrom, S. V. Edwards, A. Stamatakis, D. P. Mindell, J. Cracraft, E. L. Braun, T. Warnow, W. Jun, M. T. P. Gilbert, G. Zhang. 2014. Whole-genome analyses resolve early branches in the tree of life of modern birds. Science 346 (6215): 1320-1331.
https://doi.org/10.1126/science.1253451
Javier Gonzalez, Michael Wink, 2008, 'Phylogenetic position of the monotypic Des Murs’ Wiretail (Sylviorthorhynchus desmursii, Aves: Furnariidae) based on mitochondrial and nuclear DNA', Journal of Ornithology, vol. 149, no. 3, pp. 393-398
https://doi.org/10.1007/s10336-007-0251-0
Javier Montenegro, Frederic Sinniger, James Davis Reimer, 2015, 'Unexpected diversity and new species in the sponge-Parazoanthidae association in southern Japan', Molecular Phylogenetics and Evolution, vol. 89, pp. 73-90
https://doi.org/10.1016/j.ympev.2015.04.002
Javier Montenegro, Martyn E. Y. Low, James Davis Reimer, 2015, 'The resurrection of the genusBergia(Anthozoa, Zoantharia, Parazoanthidae)', Systematics and Biodiversity, vol. 14, no. 1, pp. 63-73
https://doi.org/10.1080/14772000.2015.1101028
Jayawardena R.S., Zhang W., Liu M., Maharachchikumbura M.S., Zhou Y., Huang J., Nilthong S., Wang Z., Li X., Yan J., & Hyde K.D. 2014. Identification and characterization of Pestalotiopsis-like fungi related to grapevine diseases in China. Fungal Biology, .
https://doi.org/10.1016/j.funbio.2014.11.001
Jennifer L. Fessler, Mark W. Westneat, 2007, 'Molecular phylogenetics of the butterflyfishes (Chaetodontidae): Taxonomy and biogeography of a global coral reef fish family', Molecular Phylogenetics and Evolution, vol. 45, no. 1, pp. 50-68
https://doi.org/10.1016/j.ympev.2007.05.018
Jenny K. Archibald, Susan R. Kephart, Kathryn E. Theiss, Anna L. Petrosky, Theresa M. Culley, 2015, 'Multilocus phylogenetic inference in subfamily Chlorogaloideae and related genera of Agavaceae – Informing questions in taxonomy at multiple ranks', Molecular Phylogenetics and Evolution, vol. 84, pp. 266-283
https://doi.org/10.1016/j.ympev.2014.12.014
Jens J. Ringelberg et al.,
Precipitation is the main axis of tropical plant phylogenetic turnover across space and time.Sci. Adv.9,eade4954(2023).DOI:10.1126/sciadv.ade4954
https://doi.org/10.1126/sciadv.ade4954
Jessica D. Stephens, Willie L. Rogers, Karolina Heyduk, Jennifer M. Cruse-Sanders, Ron O. Determann, Travis C. Glenn, Russell L. Malmberg, 2015, 'Resolving phylogenetic relationships of the recently radiated carnivorous plant genus Sarracenia using target enrichment', Molecular Phylogenetics and Evolution, vol. 85, pp. 76-87
https://doi.org/10.1016/j.ympev.2015.01.015
Jessica L. Ware, Christopher D. Beatty, Melissa Sánchez Herrera, Steve Valley, Jim Johnson, Cary Kerst, Michael L. May, Gunther Theischinger, 2014, 'The petaltail dragonflies (Odonata: Petaluridae): Mesozoic habitat specialists that survive to the modern day', Journal of Biogeography, vol. 41, no. 7, pp. 1291-1300
https://doi.org/10.1111/jbi.12273
Jessica Ware, Michael May, Karl Kjer, 2007, 'Phylogeny of the higher Libelluloidea (Anisoptera: Odonata): An exploration of the most speciose superfamily of dragonflies', Molecular Phylogenetics and Evolution, vol. 45, no. 1, pp. 289-310
https://doi.org/10.1016/j.ympev.2007.05.027
Jetz, W., G. H. Thomas, J. B. Joy, K. Hartmann, A. O. Mooers. 2012. The global diversity of birds in space and time. Nature 491 (7424): 444-448
https://doi.org/10.1038/nature11631
Jha, A., Seneviratne, S., Prayag, H. S., & Vasudevan, K. (2021). Phylogeny identifies multiple colonisation events and Miocene aridification as drivers of South Asian bulbul (Passeriformes: Pycnonotidae) diversification. Organisms Diversity & Evolution, 21(4), 783–794. https://doi.org/10.1007/s13127-021-00506-y
https://doi.org/10.1007/s13127-021-00506-y
Ji Y. 2012. Propose of a New Variety of Epichloe sylvatica in Native Brachypodium sylvaticum (Huds.) P. Beauv. Grown in Huangshan. Mycology: An International Journal on Fungal Biology, .
No link provided! Try
Google Scholar or
CrossRef.org
Ji Y., Kang Y., Sun X., Wang Z., Yu H., Zhan L., Ji Y., Zhan L., Sun X., Yu H., & Wang Z. 2009. A new stromata-producing Neotyphodium species symbiotic with clonal grass Calamagrostis epigeios (L.) Roth. grown in China. Mycologia, 101 (2): 200-205.
https://doi.org/10.3852/08-044
Ji, L., Jia, Z., & Bai, X. (2024). Comparative Analysis of the Mitochondrial Genomes of Three Species of Yangiella (Hemiptera: Aradidae) and the Phylogenetic Implications of Aradidae. Insects, 15(7), 533. https://doi.org/10.3390/insects15070533
https://doi.org/10.3390/insects15070533
Jiang J., Li J., Fu C., Li M., & Lou X. 2008. Phylogenetics and biogeography of Wisteria (Fabaceae) inferred from sequences of chloroplast and nuclear DNA regions. Systematic Botany, null.
No link provided! Try
Google Scholar or
CrossRef.org
Jiang, Z., Zang, W., Ericson, P. G. P., Song, G., Wu, S., Feng, S., Drovetski, S. V., Liu, G., Zhang, D., Saitoh, T., Alström, P., Edwards, S. V., Lei, F., & Qu, Y. (2024). Gene flow and an anomaly zone complicate phylogenomic inference in a rapidly radiated avian family (Prunellidae). BMC Biology, 22(1). https://doi.org/10.1186/s12915-024-01848-7
https://doi.org/10.1186/s12915-024-01848-7
Jiao, B., Wei, M., Niu, G., Chen, X., Liu, Y., Huang, G., Chen, C., Zheng, J., Shen, J., Vitales, D., Vallès, J., Verloove, F., Erst, A. S., Seregin, A. P., Soejima, A., Ge, X., Jabbour, F., Leostrin, A., Kokubugata, G., … Gao, T. (2025). Global phylogeny and taxonomy of Artemisia. Nature Communications, 16(1). https://doi.org/10.1038/s41467-025-64039-0
https://doi.org/10.1038/s41467-025-64039-0
Jin L.S., Cadotte M.W., & Fortin M. 2015. Phylogenetic turnover patterns consistent with niche conservatism in montane plant species. Journal of Ecology, .
https://doi.org/10.1111/1365-2745.12385
Jin, M., Shin, S., Ashman, L. G., Leschen, R. A. B., Zwick, A., de Keyzer, R., McKenna, D. D., & Ślipiński, A. (2022). Phylogenomics resolves timing and patterns in the evolution of Australasian Cerambycinae (Coleoptera: Cerambycidae), and reveals new insights into the subfamily-level classification and historical biogeography of longhorn beetles. Molecular Phylogenetics and Evolution, 172, 107486. https://doi.org/10.1016/j.ympev.2022.107486
https://doi.org/10.1016/j.ympev.2022.107486
Jin, M., Zwick, A., Ślipiński, A., Marris, J. W. M., Thomas, M. C., & Pang, H. (2020). A comprehensive phylogeny of flat bark beetles (Coleoptera: Cucujidae) with a revised classification and a new South American genus. Systematic Entomology, 45(2), 248–268. Portico. https://doi.org/10.1111/syen.12392
https://doi.org/10.1111/syen.12392
Jin, M., Zwick, A., Ślipiński, A., de Keyzer, R., & Pang, H. (2020). Museomics reveals extensive cryptic diversity of Australian prionine longhorn beetles with implications for their classification and conservation. Systematic Entomology, 45(4), 745–770. Portico. https://doi.org/10.1111/syen.12424
https://doi.org/10.1111/syen.12424
Jin-Mei Feng, Chuan-Qi Jiang, Alan Warren, Miao Tian, Jun Cheng, Guang-Long Liu, Jie Xiong, Wei Miao, 2015, 'Phylogenomic analyses reveal subclass Scuticociliatia as the sister group of subclass Hymenostomatia within class Oligohymenophorea', Molecular Phylogenetics and Evolution, vol. 90, pp. 104-111
https://doi.org/10.1016/j.ympev.2015.05.007
Jin-Mei Feng, Chuan-Qi Jiang, Alan Warren, Miao Tian, Jun Cheng, Guang-Long Liu, Jie Xiong, Wei Miao, 2015, 'Phylogenomic analyses reveal subclass Scuticociliatia as the sister group of subclass Hymenostomatia within class Oligohymenophorea', Molecular Phylogenetics and Evolution, vol. 90, pp. 104-111
https://doi.org/10.1016/j.ympev.2015.05.007
Jing Li, Xin Zheng, Yansen Cai, Xiuyue Zhang, Min Yang, Bisong Yue, Jing Li, 2014, 'DNA barcoding of Murinae (Rodentia: Muridae) and Arvicolinae (Rodentia: Cricetidae) distributed in China', Molecular Ecology Resources, vol. 15, no. 1, pp. 153-167
https://doi.org/10.1111/1755-0998.12279
Jobson, R. W. [et al. 2003], Playford, J., Cameron, K. M., & Albert, V. A. 2003. Molecular phylogenetics of Lentibulariaceae inferred from plastid rps16 intron and trnL-F sequences: Implications for character evolution and biogeography. Syst. Bot. 28: 157-171.
https://doi.org/10.1043/0363-6445-28.1.157
Jobson, R. W., & Luckow, M. 2007. Phylogenetic study of the genus Piptadenia (Mimosoideae: Leguminosae) using plastid trnL-F and trnK/matK sequence data. Syst. Bot. 32: 569-575
https://doi.org/10.1600/036364407782250544
Joel P. Olfelt, William A. Freyman, 2014, ' Relationships of North American members of Rhodiola (Crassulaceae) ', Botany, vol. 92, no. 12, pp. 901-910
https://doi.org/10.1139/cjb-2014-0009
Johansen, L. B. (2005). Phylogeny of Orchidantha (Lowiaceae) and the Zingiberales based on six DNA regions. Systematic botany, 30(1), 106-117.
https://doi.org/10.1600/0363644053661931
Johansson, U. S., Ericson, P. G. P., Fjeldså, J., & Irestedt, M. (2016). The phylogenetic position of the world’s smallest passerine, the Pygmy Bushtit Psaltria exilis. Ibis, 158(3), 519–529. Portico. https://doi.org/10.1111/ibi.12377
https://doi.org/10.1111/ibi.12377
Johansson, Ulf S., Jan Ekman, Rauri C.K. Bowie, Peter Halvarsson, Jan I. Ohlson, Trevor D. Price, Per G.P. Ericson. 2013. A complete multilocus species phylogeny of the tits and chickadees (Aves: Paridae). Molecular Phylogenetics and Evolution 69 (3): 852-860.
https://doi.org/10.1016/j.ympev.2013.06.019
John M. Heraty, Roger A. Burks, Astrid Cruaud, Gary A. P. Gibson, Johan Liljeblad, James Munro, Jean-Yves Rasplus, Gerard Delvare, Peter Janšta, Alex Gumovsky, John Huber, James B. Woolley, Lars Krogmann, Steve Heydon, Andrew Polaszek, Stefan Schmidt, D. Chris Darling, Michael W. Gates, Jason Mottern, Elizabeth Murray, Ana Dal Molin, Serguei Triapitsyn, Hannes Baur, John D. Pinto, Simon van Noort, Jeremiah George, Matthew Yoder, 2013, 'A phylogenetic analysis of the megadiverse Chalcidoidea (Hymenoptera)', Cladistics, vol. 29, no. 5, pp. 466-542
https://doi.org/10.1111/cla.12006
Johnson, Jeff A., Joseph W. Brown, Jérôme Fuchs, David P. Mindell, 2016, 'Multi-locus phylogenetic inference among New World Vultures (Aves: Cathartidae)', Molecular Phylogenetics and Evolution, vol. 105, pp. 193-199
https://doi.org/10.1016/j.ympev.2016.08.025
Johnson, K. P., Weckstein, J. D., Virrueta Herrera, S., & Doña, J. (2021). The interplay between host biogeography and phylogeny in structuring diversification of the feather louse genus Penenirmus. Molecular Phylogenetics and Evolution, 165, 107297. https://doi.org/10.1016/j.ympev.2021.107297
https://doi.org/10.1016/j.ympev.2021.107297
Johnson, O., Howard, J. T., & Brumfield, R. T. (2021). Systematics of a Neotropical clade of dead-leaf-foraging antwrens (Aves: Thamnophilidae; Epinecrophylla). Molecular Phylogenetics and Evolution, 154, 106962. https://doi.org/10.1016/j.ympev.2020.106962
https://doi.org/10.1016/j.ympev.2020.106962
Johnson, W.E., Eizirik E., Pecon-slattery J., Murphy W., Antunes A., Teeling E., & O'brien S. 2006. The late Miocene radiation of modern Felidae: a genetic assessment. Science 311(5757): 73-77.
https://doi.org/10.1126/science.1122277
Jorge L. Ramirez, Pedro M. Galetti, 2015, 'DNA barcode and evolutionary relationship within Laemolyta Cope 1872 (Characiformes: Anostomidae) through molecular analyses', Molecular Phylogenetics and Evolution, vol. 93, pp. 77-82
https://doi.org/10.1016/j.ympev.2015.07.021
Jose Tavera, Arturo Acero P., Peter C. Wainwright, 2018, 'Multilocus phylogeny, divergence times, and a major role for the benthic-to-pelagic axis in the diversification of grunts (Haemulidae)', Molecular Phylogenetics and Evolution, vol. 121, pp. 212-223
https://doi.org/10.1016/j.ympev.2017.12.032
Joseph T. Miller, Vanessa Terra, Chance Riggins, John E. Ebinger, David S. Seigler, 2017, 'Molecular Phylogenetics of Parasenegalia and Pseudosenegalia (Fabaceae: Mimosoideae)', Systematic Botany, vol. 42, no. 3, pp. 465-469
https://doi.org/10.1600/036364417x696140
Joseph, Leo, Alicia Toon, Erin E. Schirtzinger, Timothy F. Wright. 2011. Molecular systematics of two enigmatic genera Psittacella and Pezoporus illuminate the ecological radiation of Australo-Papuan parrots (Aves: Psittaciformes). Molecular Phylogenetics and Evolution 59 (3): 675-684.
https://doi.org/10.1016/j.ympev.2011.03.017
Joshua M. Hallas, W. Brian Simison, Terrence M. Gosliner, 2016, 'Dating and biogeographical patterns in the sea slug genus Acanthodoris Gray, 1850 (Mollusca, Gastropoda, Nudibranchia)', Molecular Phylogenetics and Evolution, vol. 97, pp. 19-31
https://doi.org/10.1016/j.ympev.2015.12.018
Juan Carlos Illera, David S. Richardson, Barbara Helm, Juan Carlos Atienza, Brent C. Emerson, 2008, 'Phylogenetic relationships, biogeography and speciation in the avian genus Saxicola', Molecular Phylogenetics and Evolution, vol. 48, no. 3, pp. 1145-1154
https://doi.org/10.1016/j.ympev.2008.05.016
Juan Moles, Conxita Avila, Manuel A E Malaquias, 2017, 'Systematic revision of the Antarctic gastropod family Newnesiidae (Heterobranchia: Cephalaspidea) with the description of a new genus and a new abyssal species', Zoological Journal of the Linnean Society
https://doi.org/10.1093/zoolinnean/zlx089
Julia J. Day, Antoine Fages, Katherine J. Brown, Emmanuel J. Vreven, Melanie L. J. Stiassny, Roger Bills, John P. Friel, Lukas Rüber, 2017, 'Multiple independent colonizations into the Congo Basin during the continental radiation of African Mastacembelus
spiny eels', Journal of Biogeography
https://doi.org/10.1111/jbi.13037
Julián Aguirre-Santoro, Fabián A. Michelangeli, Dennis W. Stevenson, 2016, 'Molecular phylogenetics of the Ronnbergia Alliance (Bromeliaceae, Bromelioideae) and insights into their morphological evolution', Molecular Phylogenetics and Evolution, vol. 100, pp. 1-20
https://doi.org/10.1016/j.ympev.2016.04.007
Jun-Liang Zhou, Lin Zhu, Hong Chen, Bao-Kai Cui, 2016, 'Taxonomy and Phylogeny of Polyporus Group Melanopus (Polyporales, Basidiomycota) from China', PLOS ONE, vol. 11, no. 8, p. e0159495
https://doi.org/10.1371/journal.pone.0159495
Jung, T., & Burgess, T. I. (2009). Re-evaluation of <I>Phytophthora citricola</I> isolates from multiple woody hosts in Europe and North America reveals a new species, <I>Phytophthora plurivora</I> sp. nov. Persoonia - Molecular Phylogeny and Evolution of Fungi, 22(1), 95–110. https://doi.org/10.3767/003158509x442612
https://doi.org/10.3767/003158509x442612
Juslen, Aino, Henry Vare, and Niklas Wikstrom. "Relationships and evolutionary origins of polyploid Dryopteris (Dryopteridaceae) from Europe inferred using nuclear pgiC and plastid trnL-F sequence data." Taxon 60, no. 5 (2011): 1284-1294.
No link provided! Try
Google Scholar or
CrossRef.org
Juvé, Y., Weyna, A., Lauroua, E., Nidelet, S., Khaldi, M., Barech, G., Lebas, C., Rasplus, J., Cruaud, A., Condamine, F. L., & Romiguier, J. (2025). Phylogenomics of Messor harvester ants (Hymenoptera: Formicidae: Stenammini) unravels their biogeographical origin and diversification patterns. Systematic Entomology, 50(4), 1025–1040. Portico. https://doi.org/10.1111/syen.12693
https://doi.org/10.1111/syen.12693
Jérôme Fuchs, Jean-Marc Pons, Steven M Goodman, Vincent Bretagnolle, Martim Melo, Rauri CK Bowie, David Currie, Roger Safford, Munir Z Virani, Simon Thomsett, Alawi Hija, Corinne Cruaud, Eric Pasquet, 2008, 'Tracing the colonization history of the Indian Ocean scops-owls (Strigiformes: Otus) with further insight into the spatio-temporal origin of the Malagasy avifauna', BMC Evolutionary Biology, vol. 8, no. 1, p. 197
https://doi.org/10.1186/1471-2148-8-197
Jønsson, Knud A., Rauri C. K. Bowie, Robert G. Moyle, Martin Irestedt, Les Christidis, Janette A. Norman, Jon Fjeldså. 2010. Phylogeny and biogeography of Oriolidae (Aves: Passeriformes). Ecography 33 (2): 232-241.
https://doi.org/10.1111/j.1600-0587.2010.06167.x
Jønsson, Knud Andreas, Pierre-Henri Fabre, Jonathan D. Kennedy, Ben G. Holt, Michael K. Borregaard, Carsten Rahbek, Jon Fjeldså. 2016. A supermatrix phylogeny of corvoid passerine birds (Aves: Corvides). Molecular Phylogenetics and Evolution 94: 87-94.
https://doi.org/10.1016/j.ympev.2015.08.020
K. L. Haag, T. Y. James, J.-F. Pombert, R. Larsson, T. M. M. Schaer, D. Refardt, D. Ebert, 2014, 'Evolution of a morphological novelty occurred before genome compaction in a lineage of extreme parasites', Proceedings of the National Academy of Sciences, vol. 111, no. 43, pp. 15480-15485
https://doi.org/10.1073/pnas.1410442111
K. M. Bayha, M. N. Dawson, A. G. Collins, M. S. Barbeitos, S. H. D. Haddock, 2010, 'Evolutionary Relationships Among Scyphozoan Jellyfish Families Based on Complete Taxon Sampling and Phylogenetic Analyses of 18S and 28S Ribosomal DNA', Integrative and Comparative Biology, vol. 50, no. 3, pp. 436-455
https://doi.org/10.1093/icb/icq074
K. M. Kozak, N. Wahlberg, A. F. E. Neild, K. K. Dasmahapatra, J. Mallet, C. D. Jiggins, 2015, 'Multilocus Species Trees Show the Recent Adaptive Radiation of the Mimetic Heliconius Butterflies', Systematic Biology, vol. 64, no. 3, pp. 505-524
https://doi.org/10.1093/sysbio/syv007
K.M. Abrams, M.T. Guzik, S.J.B. Cooper, W.F. Humphreys, R.A. King, J.-L. Cho, A.D. Austin, 2012, 'What lies beneath: Molecular phylogenetics and ancestral state reconstruction of the ancient subterranean Australian Parabathynellidae (Syncarida, Crustacea)', Molecular Phylogenetics and Evolution, vol. 64, no. 1, pp. 130-144
https://doi.org/10.1016/j.ympev.2012.03.010
K.M. Hultgren, J.J. Stachowicz, 2008, 'Molecular phylogeny of the brachyuran crab superfamily Majoidea indicates close congruence with trees based on larval morphology', Molecular Phylogenetics and Evolution, vol. 48, no. 3, pp. 986-996
https://doi.org/10.1016/j.ympev.2008.05.004
K.Y. Ma, T.-Y. Chan, K.H. Chu, 2009, 'Phylogeny of penaeoid shrimps (Decapoda: Penaeoidea) inferred from nuclear protein-coding genes', Molecular Phylogenetics and Evolution, vol. 53, no. 1, pp. 45-55
https://doi.org/10.1016/j.ympev.2009.05.019
KARANOVIC, T., & COOPER, S. J. B. (2011). Molecular and morphological evidence for short range endemism in the Kinnecaris solitaria complex (Copepoda: Parastenocarididae), with descriptions of seven new species. Zootaxa, 3026(1), 1. https://doi.org/10.11646/zootaxa.3026.1.1
https://doi.org/10.11646/zootaxa.3026.1.1
KERGOAT, G. J., & ALVAREZ, N. (2008). Assessing the phylogenetic usefulness of a previously neglected morphological structure through elliptic Fourier analyses: a case study in Bruchus seed‐beetles (Coleoptera: Chrysomelidae: Bruchinae). Systematic Entomology, 33(2), 289–300. Portico. https://doi.org/10.1111/j.1365-3113.2007.00405.x
https://doi.org/10.1111/j.1365-3113.2007.00405.x
KERGOAT, G. J., SOLDATI, L., CLAMENS, A., JOURDAN, H., JABBOUR‐ZAHAB, R., GENSON, G., BOUCHARD, P., & CONDAMINE, F. L. (2014). Higher level molecular phylogeny of darkling beetles (<scp>C</scp>oleoptera:<scp>T</scp>enebrionidae). Systematic Entomology, 39(3), 486–499. Portico. https://doi.org/10.1111/syen.12065
https://doi.org/10.1111/syen.12065
KIM, H., & LEE, S. (2008). A molecular phylogeny of the tribe Aphidini (Insecta: Hemiptera: Aphididae) based on the mitochondrial tRNA/COII, 12S/16S and the nuclear EF1α genes. Systematic Entomology, 33(4), 711–721. Portico. https://doi.org/10.1111/j.1365-3113.2008.00440.x
https://doi.org/10.1111/j.1365-3113.2008.00440.x
KRISHNANKUTTY, S. M., DIETRICH, C. H., DAI, W., & SIDDAPPAJI, M. H. (2016). Phylogeny and historical biogeography of leafhopper subfamily Iassinae (Hemiptera: Cicadellidae) with a revised tribal classification based on morphological and molecular data. Systematic Entomology, 41(3), 580–595. Portico. https://doi.org/10.1111/syen.12175
https://doi.org/10.1111/syen.12175
Ka Yan Ma, Tin-Yam Chan, Ka Hou Chu, 2011, 'Refuting the six-genus classification of Penaeus s.l. (Dendrobranchiata, Penaeidae): a combined analysis of mitochondrial and nuclear genes', Zoologica Scripta, vol. 40, no. 5, pp. 498-508
https://doi.org/10.1111/j.1463-6409.2011.00483.x
Kaehler, M., Michelangeli, F. A., & Lohmann, L. G. (2012). Phylogeny of Lundia (Bignoniaceae) based on ndhF and PepC sequences. Taxon, 61(2), 368-380.
http://www.ingentaconnect.com/content/iapt/tax/2012/00000061/00000002/art00008
Kaliszewska Z.A., Lohman D.J., Sommer K., Adelson G., Rand D.B., Mathew J., Talavera G., & Pierce N. 2015. When caterpillars attack: Biogeography and life-history evolution of the Miletinae (Lepidoptera: Lycaenidae). Evolution, .
https://doi.org/10.1111/evo.12599
Kamei R.G., San mauro D., Gower D., Van bocxlaer I., Sherratt E., Thomas A., Babu S., Bossuyt F., Wilkinson M., & Biju S.D. 2012. Discovery of a new family of amphibians from northeast India with ancient links to Africa. Proceedings of the Royal Society B, 279: 2396?2401.
https://doi.org/10.1098/rspb.2012.0150
Kamiński, M. J., Kanda, K., Lumen, R., Smith, A. D., & Iwan, D. (2018). Molecular phylogeny of Pedinini (Coleoptera, Tenebrionidae) and its implications for higher-level classification. Zoological Journal of the Linnean Society. https://doi.org/10.1093/zoolinnean/zly033
https://doi.org/10.1093/zoolinnean/zly033
Kaplin, V. G. (2018). A Survey of the Distribution and Phylogenetic Relationships of the Silvestrichilis Group of Genera and of the Species of the Genus Silvestrichilis Wygodz. (Archaeognatha, Machilidae) with Description of a New Species from South Ossetia. Entomological Review, 98(3), 329–351. https://doi.org/10.1134/s0013873818030107
https://doi.org/10.1134/s0013873818030107
Karanovic, T., Eberhard, S., Cooper, S. J. B., & Guzik, M. T. (2015). Morphological and molecular study of the genus Nitokra (Crustacea, Copepoda, Harpacticoida) in a small palaeochannel in Western Australia. Organisms Diversity & Evolution, 15(1), 65–99. https://doi.org/10.1007/s13127-014-0193-3
https://doi.org/10.1007/s13127-014-0193-3
Karanovic, T., Kim, K., & Grygier, M. J. (2015). A new species ofSchizopera(Copepoda: Harpacticoida) from Japan, its phylogeny based on the mtCOI gene and comments on the genusSchizoperopsis. Journal of Natural History, 49(41–42), 2493–2526. https://doi.org/10.1080/00222933.2015.1028112
https://doi.org/10.1080/00222933.2015.1028112
Karanovic, T., Kim, K., & Lee, W. (2014). Morphological and molecular affinities of two East Asian species of Stenhelia (Crustacea, Copepoda, Harpacticoida). ZooKeys, 411, 105–143. https://doi.org/10.3897/zookeys.411.7346
https://doi.org/10.3897/zookeys.411.7346
Karanovic, T., Lee, S., & Lee, W. (2018). Instant taxonomy: choosing adequate characters for species delimitation and description through congruence between molecular data and quantitative shape analysis. Invertebrate Systematics, 32(3), 551. https://doi.org/10.1071/is17002
https://doi.org/10.1071/is17002
Kari Roesch Goodman, Neal L. Evenhuis, Pavla Bartošová-Sojková, Patrick M. O’Grady, 2014, 'Diversification in Hawaiian long-legged flies (Diptera: Dolichopodidae: Campsicnemus): Biogeographic isolation and ecological adaptation', Molecular Phylogenetics and Evolution, vol. 81, pp. 232-241
https://doi.org/10.1016/j.ympev.2014.07.015
Karis P. 1989. Systematics of the genus Metalasia (Asteraceae-Gnaphalieae). Opera Botanica, 99: 1-150.
No link provided! Try
Google Scholar or
CrossRef.org
Kates, H. R., O’Meara, B. C., LaFrance, R., Stull, G. W., James, E. K., Conde, D., Liu, S., Tian, Q., Yi, T., Kirst, M., Ané, J.-M., Soltis, D. E., Guralnick, R. P., Soltis, P. S., & Folk, R. A. (2022). Two shifts in evolutionary lability underlie independent gains and losses of root-nodule symbiosis in a single clade of plants. https://doi.org/10.1101/2022.07.31.502231
https://doi.org/10.1101/2022.07.31.502231
Katharina Dittmar, Megan L. Porter, Susan Murray, Michael F. Whiting, 2006, 'Molecular phylogenetic analysis of nycteribiid and streblid bat flies (Diptera: Brachycera, Calyptratae): Implications for host associations and phylogeographic origins', Molecular Phylogenetics and Evolution, vol. 38, no. 1, pp. 155-170
https://doi.org/10.1016/j.ympev.2005.06.008
Kavanaugh, D. H., Maddison, D. R., Simison, W. B., Schoville, S. D., Schmidt, J., Faille, A., Moore, W., Pflug, J. M., Archambeault, S. L., Hoang, T., & Chen, J.-Y. (2021). Phylogeny of the supertribe Nebriitae (Coleoptera, Carabidae) based on analyses of DNA sequence data. ZooKeys, 1044, 41–152. https://doi.org/10.3897/zookeys.1044.62245
https://doi.org/10.3897/zookeys.1044.62245
Kawahara AY, Mignault AA, Regier JC, Kitching IJ, Mitter C (2009) 'Phylogeny and Biogeography of Hawkmoths (Lepidoptera: Sphingidae): Evidence from Five Nuclear Genes., PLoS ONE, vol. 4, no. 5, p. e5719
https://doi.org/10.1371/journal.pone.0005719
Kawahara, A. Y., J. W. Breinholt. 2014. Phylogenomics provides strong evidence for relationships of butterflies and moths. Proceedings of the Royal Society B: Biological Sciences 281 (1788): 20140970-20140970.
https://doi.org/10.1098/rspb.2014.0970
Kawahara, A. Y., Storer, C., Carvalho, A. P. S., Plotkin, D. M., Condamine, F. L., Braga, M. P., Ellis, E. A., St Laurent, R. A., Li, X., Barve, V., Cai, L., Earl, C., Frandsen, P. B., Owens, H. L., Valencia-Montoya, W. A., Aduse-Poku, K., Toussaint, E. F. A., Dexter, K. M., Doleck, T., … Lohman, D. J. (2023). A global phylogeny of butterflies reveals their evolutionary history, ancestral hosts and biogeographic origins. Nature Ecology & Evolution. https://doi.org/10.1038/s41559-023-02041-9
https://doi.org/10.1038/s41559-023-02041-9
Kayal, E., Roure, B., Philippe, H., Collins, A. G., & Lavrov, D. V. 2013. Cnidarian phylogenetic relationships as revealed by mitogenomics. BMC Evolutionary Biology 13 (1): 5.
https://doi.org/10.1186/1471-2148-13-5
Kelly M. Harkins, Rachel S. Schwartz, Reed A. Cartwright, Anne C. Stone, 2016, 'Phylogenomic reconstruction supports supercontinent origins for Leishmania', Infection, Genetics and Evolution, vol. 38, pp. 101-109
https://doi.org/10.1016/j.meegid.2015.11.030
Kennedy A.H., & Watson L. 2010. Species Delimitations and Phylogenetic Relationships within in the Fully Myco-heterotrophic Hexalectris (Orchidaceae). Systematic Botany, 35(1): 64-76.
https://doi.org/10.1600/036364410790862489
Kennedy, J. D., Marki, P. Z., Reeve, A. H., Blom, M. P. K., Prawiradilaga, D. M., Haryoko, T., Koane, B., Kamminga, P., Irestedt, M., Jønsson, K. A., & Sheard, C. (2022). Diversification and community assembly of the world’s largest tropical island. Global Ecology and Biogeography. Portico. https://doi.org/10.1111/geb.13484
https://doi.org/10.1111/geb.13484
Kennedy, M., S.A. Taylor, P. Nádvorník, H. Spencer. 2013. The phylogenetic relationships of the extant pelicans inferred from DNA sequence data. Molecular Phylogenetics and Evolution 66 (1): 215-222.
https://doi.org/10.1016/j.ympev.2012.09.034
Kennedy, M., Seneviratne, S. S., Mendis, U. K., & Spencer, H. G. (2019). Sorting out the Snakebirds: The species status, phylogeny, and biogeography of the Darters (Aves: Anhingidae). Journal of Zoological Systematics and Evolutionary Research, 57(4), 892–899. Portico. https://doi.org/10.1111/jzs.12299
https://doi.org/10.1111/jzs.12299
Kennedy, Martyn, Carlos A. Valle, Hamish G. Spencer. 2009. The phylogenetic position of the Galapagos Cormorant. Molecular Phylogenetics and Evolution 53 (1): 94-98.
https://doi.org/10.1016/j.ympev.2009.06.002
Kennedy, Martyn, Hamish G. Spencer. 2014. Classification of the cormorants of the world. Molecular Phylogenetics and Evolution 79: 249-257.
https://doi.org/10.1016/j.ympev.2014.06.020
Kergoat, G. J., Delobel, A., & Silvain, J.-F. (2004). Phylogeny and host-specificity of European seed beetles (Coleoptera, Bruchidae), new insights from molecular and ecological data. Molecular Phylogenetics and Evolution, 32(3), 855–865. https://doi.org/10.1016/j.ympev.2004.02.019
https://doi.org/10.1016/j.ympev.2004.02.019
Kerrigan R., Callac P., & Parra L. 2008. New and rare taxa in Agaricus section Bivelares (Duploannulati). Mycologia, 100(6): 876-892.
https://doi.org/10.3852/08-019
Khodami, S., Mercado-Salas, N. F., Tang, D., & Martinez Arbizu, P. (2019). Molecular evidence for the retention of the Thaumatopsyllidae in the order Cyclopoida (Copepoda) and establishment of four suborders and two families within the Cyclopoida. Molecular Phylogenetics and Evolution, 138, 43–52. doi:10.1016/j.ympev.2019.05.019
https://doi.org/10.1016/j.ympev.2019.05.019
Kiefer, J. S. T., Bauer, E., Okude, G., Fukatsu, T., Kaltenpoth, M., & Engl, T. (2023). Cuticle supplementation and nitrogen recycling by a dual bacterial symbiosis in a family of xylophagous beetles. The ISME Journal, 17(7), 1029–1039. https://doi.org/10.1038/s41396-023-01415-y
https://doi.org/10.1038/s41396-023-01415-y
Kim, K., Trebukhova, Y., Lee, W., & Karanovic, T. (2014). A new species ofEnhydrosoma(Copepoda: Harpacticoida: Cletodidae) from Korea, with redescription ofE. intermediaand establishment of a new genus. Proceedings of the Biological Society of Washington, 127(1), 248–283. https://doi.org/10.2988/0006-324x-127.1.248
https://doi.org/10.2988/0006-324x-127.1.248
Kimball, R. T., Oliveros, C. H., Wang, N., White, N. D., Barker, F. K., Field, D. J., … Braun, E. L. (2019). A Phylogenomic Supertree of Birds. Diversity, 11(7), 109. doi:10.3390/d11070109
https://doi.org/10.3390/d11070109
Kimball, Rebecca T., Colette M. St. Mary, Edward L. Braun. 2011. A macroevolutionary perspective on multiple sexual traits in the Phasianidae (Galliformes). International Journal of Evolutionary Biology 2011: 1-16.
https://doi.org/10.4061/2011/423938
King, B. F., Sangster, G., Trainor, C. R., Irestedt, M., Prawiradilaga, D. M., & Ericson, P. G. P. (2024). A new species of nightjar (Caprimulgus) from Timor and Wetar, Lesser Sunda Islands, Wallacea. Ibis, 166(4), 1241–1263. Portico. https://doi.org/10.1111/ibi.13340
https://doi.org/10.1111/ibi.13340
Kiontke K., Gavin N., Raynes Y., Roehrig C., Piano F., & Fitch D. 2004. Caenorhabditis phylogeny predicts convergence of hermaphroditism and extensive intron loss. Proceedings of the National Academy of Sciences of the United States of America 101 (24): 9003-9008.
https://doi.org/10.1073/pnas.0403094101
Kirchman, J. J., McInerney, N. R., Giarla, T. C., Olson, S. L., Slikas, E., & Fleischer, R. C. (2021). Corrigendum to: Phylogeny based on ultra-conserved elements clarifies the evolution of rails and allies (Ralloidea) and is the basis for a revised classification. Ornithology, 139(1). https://doi.org/10.1093/ornithology/ukab065
https://doi.org/10.1093/ornithology/ukab065
Kirsch, R., Okamura, Y., García-Lozano, M., Weiss, B., Keller, J., Vogel, H., Fukumori, K., Fukatsu, T., Konstantinov, A. S., Montagna, M., Moseyko, A. G., Riley, E. G., Slipinski, A., Vencl, F. V., Windsor, D. M., Salem, H., Kaltenpoth, M., & Pauchet, Y. (2025). Symbiosis and horizontal gene transfer promote herbivory in the megadiverse leaf beetles. Current Biology, 35(3), 640-654.e7. https://doi.org/10.1016/j.cub.2024.12.028
https://doi.org/10.1016/j.cub.2024.12.028
Kiselyova, T., & Mchugh, J. V. (2006). A phylogenetic study of Dermestidae (Coleoptera) based on larval morphology. Systematic Entomology, 31(3), 469–507. Portico. https://doi.org/10.1111/j.1365-3113.2006.00335.x
https://doi.org/10.1111/j.1365-3113.2006.00335.x
Kissling, J., & Barrett, S. C. (2013). Variation and evolution of herkogamy in Exochaenium (Gentianaceae): implications for the evolution of distyly. Annals of botany, 112(1), 95-102.
https://doi.org/10.1093/aob/mct097
Klich, M. A., J. W. Cary, S. B. Beltz, and C. A. Bennett. "Phylogenetic and morphological analysis of Aspergillus ochraceoroseus." Mycologia 95, no. 6 (2003): 1252-1260.
https://doi.org/10.2307/3761925
Klicka, John, F. Keith Barker, Kevin J. Burns, Scott M. Lanyon, Irby J. Lovette, Jaime A. Chaves, Robert W. Bryson. 2014. A comprehensive multilocus assessment of sparrow (Aves: Passerellidae) relationships. Molecular Phylogenetics and Evolution 77: 177–182.
https://doi.org/10.1016/j.ympev.2014.04.025
Klicka, L. B., Campillo, L. C., Manthey, J. D., Andersen, M. J., Dumbacher, J. P., Filardi, C. E., Joseph, L., Uy, J. A. C., Weidemann, D. E., & Moyle, R. G. (2022). Genomic and geographic diversification of a “great-speciator” (Rhipidura rufifrons). Ornithology, 140(1). https://doi.org/10.1093/ornithology/ukac049
https://doi.org/10.1093/ornithology/ukac049
Kling, Hedy J., H. Dail Laughinghouse IV, Jan Šmarda, Jiří Komárek, Judy
Acreman, Karl Bruun, Sue B. Watson & Feng Chen. 2012. A new red colonial Pseudanabaena (Cyanoprokaryota, Oscillatoriales) from North American large lakes. Fottea, Olomouc, 12 (2): 327–339.
http://www.fottea.cz/_contents/F12-2-2012-12.pdf
Knud A. Jønsson, Rauri C. K. Bowie, Robert G. Moyle, Les Christidis, Christopher E. Filardi, Janette A. Norman, Jon Fjeldså, 2008, ' Molecular phylogenetics and diversification within one of the most geographically variable bird species complexes Pachycephala pectoralis / melanura ', Journal of Avian Biology, vol. 39, no. 5, pp. 473-478
https://doi.org/10.1111/j.0908-8857.2008.04486.x
Kobayashi, T., & Sota, T. (2021). Evolution of host use in fungivorous ciid beetles (Coleoptera: Ciidae): Molecular phylogeny focusing on Japanese taxa. Molecular Phylogenetics and Evolution, 162, 107197. https://doi.org/10.1016/j.ympev.2021.107197
https://doi.org/10.1016/j.ympev.2021.107197
Kocarek, P., John V., & Hulva P. 2013. When the body hides the ancestry: phylogeny of morphologically modified epizoic earwigs based on molecular evidence. PLoS ONE 8 (6): e66900.
https://doi.org/10.1371/journal.pone.0066900
Kochanova, E., Nair, A., Sukhikh, N., Väinölä, R., & Husby, A. (2021). Patterns of Cryptic Diversity and Phylogeography in Four Freshwater Copepod Crustaceans in European Lakes. Diversity, 13(9), 448. https://doi.org/10.3390/d13090448
https://doi.org/10.3390/d13090448
Kocot, Kevin M., Torsten H. Struck, Julia Merkel, Damien S. Waits, Christiane Todt, Pamela M. Brannock, David A. Weese, Johanna T. Cannon, Leonid L. Moroz, Bernhard Lieb, Kenneth M. Halanych. 2016. Phylogenomics of Lophotrochozoa with consideration of systematic error. Systematic Biology, p. syw079
https://doi.org/10.1093/sysbio/syw079
Koepfli, Klaus-Peter, Kerry A Deere, Graham J Slater, Colleen Begg, Keith Begg, Lon Grassman, Mauro Lucherini, Geraldine Veron, Robert K Wayne. 2008. Multigene phylogeny of the Mustelidae: Resolving relationships, tempo and biogeographic history of a mammalian adaptive radiation. BMC Biology 6 (1): 10.
https://doi.org/10.1186/1741-7007-6-10
Koepfli, Klaus-Peter, Matthew E. Gompper, Eduardo Eizirik, Cheuk-Chung Ho, Leif Linden, Jesus E. Maldonado, Robert K. Wayne. 2007. Phylogeny of the Procyonidae (Mammalia: Carnivora): Molecules, morphology and the Great American Interchange. Molecular Phylogenetics and Evolution 43 (3): 1076-1095.
https://doi.org/10.1016/j.ympev.2006.10.003
Koepfli, Klaus-Peter, Susan M. Jenks, Eduardo Eizirik, Tannaz Zahirpour, Blaire Van Valkenburgh, Robert K. Wayne. 2006. Molecular systematics of the Hyaenidae: Relationships of a relictual lineage resolved by a molecular supermatrix. Molecular Phylogenetics and Evolution 38 (3): 603-620.
https://doi.org/10.1016/j.ympev.2005.10.017
Korotkova N., Borsch T., & Arias S. 2017. A phylogenetic framework for the Hylocereeae (Cactaceae) and implications for the circumscription of the genera. Phytotaxa, 327(1): 1-46.
https://doi.org/10.11646/phytotaxa.327.1.1
Korotkova, N., Borsch, T., Quandt, D., Taylor, N. P., Müller, K. F., & Barthlott, W. (2011). What does it take to resolve relationships and to identify species with molecular markers? An example from the epiphytic Rhipsalideae (Cactaceae). American Journal of Botany, 98(9), 1549-1572.
https://doi.org/10.3732/ajb.1000502
Krajewski, Carey, Justin T. Sipiorski, Frank E. Anderson. 2010. Complete mitochondrial genome sequences and the phylogeny of cranes (Gruiformes: Gruidae). The Auk 127 (2): 440-452.
https://doi.org/10.1525/auk.2009.09045
Krause, Johannes, Tina Unger, Aline Noçon, Anna-Sapfo Malaspinas, Sergios-Orestis Kolokotronis, Mathias Stiller, Leopoldo Soibelzon, Helen Spriggs, Paul H Dear, Adrian W Briggs, Sarah CE Bray, Stephen J O'Brien, Gernot Rabeder, Paul Matheus, Alan Cooper, Montgomery Slatkin, Svante Pääbo, Michael Hofreiter. 2008. Mitochondrial genomes reveal an explosive radiation of extinct and extant bears near the Miocene-Pliocene boundary. BMC Evolutionary Biology 8 (1): 220.
https://doi.org/10.1186/1471-2148-8-220
Kretzer A., Luoma D., Molina R., & Spatafora J. 2003. Taxonomy of the Rhizopogon vinicolor species complex based on analysis of ITS sequences and microsatellite loci. Mycologia, 95(3): 480-487.
https://doi.org/10.2307/3761890
Kristensen R., Torp M., Kosiak B., & Holst-jensen A. 2005. Phylogeny and toxigenic potential is correlated in Fusarium species as revealed by partial translation elongation factor 1 alpha gene sequences. Mycological Research, 109 (2): 173-186.
https://doi.org/10.1017/S0953756204002114
Ksepka D., Fordyce R., Ando Y., & Jones C.M. 2012. New fossil penguins (Aves, Sphenisciformes) from the Oligocene of New Zealand reveal the skeletal plan of stem penguins. Journal of Vertebrate Paleontology, 32(2): 235-254.
https://doi.org/10.1080/02724634.2012.652051
Ksepka, Daniel T., Matthew J. Phillips. 2015. Avian diversification patterns across the K-Pg boundary: influence of calibrations, datasets, and model misspecification. Annals of the Missouri Botanical Garden 100 (4): 300-328
https://doi.org/10.3417/2014032
Kudo, S., Harano, T., Tsai, J.-F., Yoshizawa, K., & Kutsukake, N. (2024). Maternal Care under Large Clutches with Small Eggs: The Evolution of Life History Traits in Shield Bugs. The American Naturalist, 204(1), 30–42. https://doi.org/10.1086/730145
https://doi.org/10.1086/730145
Kuo L., Chen C., Shinohara W., Ebihara A., Hiroshi K., Hirotoshi S., Huang Y., & Chiou W. 2017. Not only in the temperate zone: independent gametophytes of two vittarioid ferns (Pteridaceae, Polypodiales) in East Asian subtropics. Journal of Plant Research, 130: 407-416.
https://doi.org/10.1007/s10265-016-0897-x
Kurzweil H., Linder H., & Chesselet P. 1991. The phylogeny and evolution of the Pterygodium-Corycium complex (Coryciinae, Orchidaceae). Plant Systematics and Evolution, 175: 161-223
https://doi.org/10.1007/BF00937844
Kvist S., Laumer C.E., Junoy J., & Giribet G. 2013. A further contribution to the phylogeny and systematics of Nemertea: increased sampling for Hubrechtidae and Plectonemertidae, and phylum-wide barcoding gap detection. Invertebrate Systematics, .
https://doi.org/10.1071/IS13061
Köhler, M., Reginato, M., Souza-Chies, T. T., & Majure, L. C. (2020). Insights Into Chloroplast Genome Evolution Across Opuntioideae (Cactaceae) Reveals Robust Yet Sometimes Conflicting Phylogenetic Topologies. Frontiers in Plant Science, 11. https://doi.org/10.3389/fpls.2020.00729
https://doi.org/10.3389/fpls.2020.00729
Kölsch, G., & Pedersen, B. V. (2008). Molecular phylogeny of reed beetles (Col., Chrysomelidae, Donaciinae): The signature of ecological specialization and geographical isolation. Molecular Phylogenetics and Evolution, 48(3), 936–952. https://doi.org/10.1016/j.ympev.2008.05.035
https://doi.org/10.1016/j.ympev.2008.05.035
L. J. Iannone, D. Cabral, C. L. Schardl, M. S. Rossi, 2009, 'Phylogenetic divergence, morphological and physiological differences distinguish a new Neotyphodium endophyte species in the grass Bromus auleticus from South America', Mycologia, vol. 101, no. 3, pp. 340-351
https://doi.org/10.3852/08-156
LANTERI, A. A., & DEL RIO, M. G. (2016). Phylogeny of the tribe Naupactini (Coleoptera: Curculionidae) based on morphological characters. Systematic Entomology, 42(2), 429–447. Portico. https://doi.org/10.1111/syen.12223
https://doi.org/10.1111/syen.12223
LAPOLLA, J. S., KALLAL, R. J., & BRADY, S. G. (2011). A new ant genus from the Greater Antilles and Central America, Zatania (Hymenoptera: Formicidae), exemplifies the utility of male and molecular character systems. Systematic Entomology, 37(1), 200–214. Portico. https://doi.org/10.1111/j.1365-3113.2011.00605.x
https://doi.org/10.1111/j.1365-3113.2011.00605.x
LEE, S., & BROWN, R. L. (2008). Phylogenetic relationships of Holarctic Teleiodini (Lepidoptera: Gelechiidae) based on analysis of morphological and molecular data. Systematic Entomology, 33(4), 595–612. Portico. https://doi.org/10.1111/j.1365-3113.2008.00430.x
https://doi.org/10.1111/j.1365-3113.2008.00430.x
LEIVAS, F. W. T., BICHO, C. L., & ALMEIDA, L. M. (2014). Cladistic analysis of<scp>O</scp>malodini<scp>K</scp>ryzhanovskij (<scp>C</scp>oleoptera:<scp>H</scp>isteridae:<scp>H</scp>isterinae). Systematic Entomology, 40(2), 433–455. Portico. https://doi.org/10.1111/syen.12112
https://doi.org/10.1111/syen.12112
LESCHEN, R. A. B., & BUCKLEY, T. R. (2014). Revision and phylogeny of Syrphetodes (<scp>C</scp>oleoptera: <scp>U</scp>lodidae): implications for biogeography, alpinization and conservation. Systematic Entomology, 40(1), 143–168. Portico. https://doi.org/10.1111/syen.12094
https://doi.org/10.1111/syen.12094
LESCHEN, R. A. B., & LACKNER, T. (2013). Gondwanan Gymnochilini (Coleoptera: Trogossitidae): generic concepts, review of New Zealand species and long‐range Pacific dispersal. Systematic Entomology, 38(2), 278–304. Portico. https://doi.org/10.1111/j.1365-3113.2012.00661.x
https://doi.org/10.1111/j.1365-3113.2012.00661.x
LI, L., RASNITSYN, A. P., LABANDEIRA, C. C., SHIH, C., & REN, D. (2017). Phylogeny of
<scp>S</scp>
tephanidae (
<scp>H</scp>
ymenoptera:
<scp>A</scp>
pocrita) with a new genus from
<scp>U</scp>
pper
<scp>C</scp>
retaceous
<scp>M</scp>
yanmar amber. Systematic Entomology, 42(1), 194–203. Portico. https://doi.org/10.1111/syen.12202
https://doi.org/10.1111/syen.12202
LIEBHERR, J. K., MARRIS, J. W. M., EMBERSON, R. M., SYRETT, P., & ROIG‐JUÑENT, S. (2011). Orthoglymma wangapeka gen.n., sp.n. (Coleoptera: Carabidae: Broscini): a newly discovered relict from the Buller Terrane, north‐western South Island, New Zealand, corroborates a general pattern of Gondwanan endemism. Systematic Entomology, 36(3), 395–414. Portico. https://doi.org/10.1111/j.1365-3113.2011.00569.x
https://doi.org/10.1111/j.1365-3113.2011.00569.x
LIN ZHU, JIA-HUI XING, BAO-KAI CUI, 2017, 'Morphological characters and phylogenetic analysis reveal a new species of Sanghuangporus from China', Phytotaxa, vol. 311, no. 3, p. 270
https://doi.org/10.11646/phytotaxa.311.3.7
LIU, L., HUANG, X., ZHANG, R., JIANG, L., & QIAO, G. (2012). Phylogenetic congruence between Mollitrichosiphum (Aphididae: Greenideinae) and Buchnera indicates insect–bacteria parallel evolution. Systematic Entomology, 38(1), 81–92. Portico. https://doi.org/10.1111/j.1365-3113.2012.00647.x
https://doi.org/10.1111/j.1365-3113.2012.00647.x
LIU, Q., CHEN, J., HUANG, X., JIANG, L., & QIAO, G. (2014). Ancient association with <scp>F</scp>agaceae in the aphid tribe <scp>G</scp>reenideini (<scp>H</scp>emiptera: <scp>A</scp>phididae: <scp>G</scp>reenideinae). Systematic Entomology, 40(1), 230–241. Portico. https://doi.org/10.1111/syen.12100
https://doi.org/10.1111/syen.12100
LIU, X., HAYASHI, F., & YANG, D. (2008). Systematics and biogeography of the fishfly genus Parachauliodes (Megaloptera: Corydalidae) endemic to the east Asian islands. Systematic Entomology, 33(3), 560–578. Portico. https://doi.org/10.1111/j.1365-3113.2008.00429.x
https://doi.org/10.1111/j.1365-3113.2008.00429.x
LIU, X., HAYASHI, F., VIRAKTAMATH, C. A., & YANG, D. (2012). Systematics and biogeography of the dobsonfly genusNevromusRambur (Megaloptera: Corydalidae: Corydalinae) from the Oriental realm. Systematic Entomology, 37(4), 657–669. Portico. https://doi.org/10.1111/j.1365-3113.2012.00635.x
https://doi.org/10.1111/j.1365-3113.2012.00635.x
LIU, X., LÜ, Y., ASPÖCK, H., YANG, D., & ASPÖCK, U. (2015). Homology of the genital sclerites of<scp>M</scp>egaloptera (<scp>I</scp>nsecta:<scp>N</scp>europterida) and their phylogenetic relevance. Systematic Entomology, 41(1), 256–286. Portico. https://doi.org/10.1111/syen.12154
https://doi.org/10.1111/syen.12154
Lahr, D.J.G., J. Grant, T. Nguyen, J.H. Lin, L.A. Katz. 2011. Comprehensive phylogenetic reconstruction of Amoebozoa based on concatenated analyses of SSU-rDNA and actin genes. PLoS ONE 6 (7): e22780.
https://doi.org/10.1371/journal.pone.0022780
Lambkin, C., Sinclair B., Pape T., Courtney G.W., Skevington J., Meier R., Yeates D., Blagoderov V., & Wiegmann B.M. 2013. The phylogenetic relationships among infraorders and superfamilies of Diptera based on morphological evidence. Systematic Entomology 38 (1): 164-179.
https://doi.org/10.1111/j.1365-3113.2012.00652.x
Lambkin, C.L., & Bartlett J.S. 2011. Bush Blitz aids description of three new species and a new genus of Australian beeflies (Diptera, Bombyliidae, Exoprosopini). ZooKeys 280 (150): 231-280.
https://doi.org/10.3897/zookeys.150.1881
Lang, Jenna Morgan, Aaron E. Darling, Jonathan A. Eisen. 2013. Phylogeny of bacterial and archaeal genomes using conserved genes: supertrees and supermatrices. PLoS ONE 8 (4): e62510.
https://doi.org/10.1371/journal.pone.0062510
Langer M.C., Bittencourt J.S., & Schultz C.L. 2011. A reassessment of the basal dinosaur Guaibasaurus candelariensis, from the Late Triassic Caturrita Formation of South Brazil. Earth and Environmental Science Transactions of the Royal Society of Edinburgh, 101: 301-332.
https://doi.org/10.1017/S175569101102007X
Lapiedra, O., Sayol, F., Garcia-Porta, J., & Sol, D. (2021). Niche shifts after island colonization spurred adaptive diversification and speciation in a cosmopolitan bird clade. Proceedings of the Royal Society B: Biological Sciences, 288(1958), 20211022. https://doi.org/10.1098/rspb.2021.1022
https://doi.org/10.1098/rspb.2021.1022
Larson P., & Daly M. 2015. Phylogenetic analysis reveals an evolutionary transition from internal to external brooding in Epiactis Verrill (Cnidaria: Anthozoa: Actiniaria) and rejects the validity of the genus Cnidopus Carlgren. Molecular Phylogenetics and Evolution, .
https://doi.org/10.1016/j.ympev.2015.10.008
Lartillot, Nicolas, Frédéric Delsuc. 2012. Joint reconstruction of divergence times and life-history evolution in placental mammals using a phylogenetic covariance model. Evolution 66 (6): 1773-1787.
https://doi.org/10.1111/j.1558-5646.2011.01558.x
Latha K., & Manimohan P. 2016. Five new species of Inocybe (Agaricales) from tropical India based on morphological and molecular data. Mycologia, 108(1): 110-122.
https://doi.org/10.3852/14-358
Laura M. Zahn, 2017, 'Loss of flight in the Galapagos cormorant', Science, vol. 356, no. 6341, pp. 918.10-919
https://doi.org/10.1126/science.356.6341.918-j
Lauren A. Esposito, Trevor Bloom, Laura Caicedo-Quiroga, Angela M. Alicea-Serrano, Jose A. Sánchez-Ruíz, Laura J. May-Collado, Greta J. Binford, Ingi Agnarsson, 2015, 'Islands within islands: Diversification of tailless whip spiders (Amblypygi, Phrynus) in Caribbean caves', Molecular Phylogenetics and Evolution, vol. 93, pp. 107-117
https://doi.org/10.1016/j.ympev.2015.07.005
Laurin-Lemay, S., Brinkmann, H., & Philippe, H. (2012). Origin of land plants revisited in the light of sequence contamination and missing data. Current Biology, 22(15), R593-R594.
https://doi.org/10.1016/j.cub.2012.06.013
Lavin M., Wojciechowski M., Gasson P., Hughes C., & Wheeler E. 2003. Phylogeny of robinioid legumes (Fabaceae) revisited: Coursetia and Gliricidia recircumscribed, and a biogeographical appraisal of the Caribbean endemics. Systematic Botany, 28(2): 387-409.
https://doi.org/10.1043/0363-6445-28.2.387
Lavrov, D. V., Diaz, M. C., Maldonado, M., Morrow, C. C., Perez, T., Pomponi, S. A., & Thacker, R. W. (2023). Phylomitogenomics bolsters the high-level classification of Demospongiae (phylum Porifera). PLOS ONE, 18(12), e0287281. https://doi.org/10.1371/journal.pone.0287281
https://doi.org/10.1371/journal.pone.0287281
Lawrence T.J., & Datwyler S. 2016. Testing the Hypothesis of Allopolyploidy in the Origin of Penstemon azureus (PLANTAGINACEAE). Frontiers in Ecology and Evolution, 4(60).
https://doi.org/10.3389/fevo.2016.00060
Lax, G., Eglit, Y., Eme, L., Bertrand, E. M., Roger, A. J., & Simpson, A. G. B. (2018). Hemimastigophora is a novel supra-kingdom-level lineage of eukaryotes. Nature, 564(7736), 410–414. doi:10.1038/s41586-018-0708-8
https://doi.org/10.1038/s41586-018-0708-8
Lazarus K., Benny G., Ho H., & Smith M.E. 2016. Phylogenetic systematics of Syncephalis (Zoopagales, Zoopagomycotina), a genus of ubiquitous mycoparasites. Mycologia, .
http://www.tandfonline.com/action/showCitFormats?doi=10.1080/00275514.2017.1307005
Le Flanchec, T., Salazar, K., Malem, J., Vendanger, J., Poirier, E., Dutertre, V., Bonillo, C., Chifflet‐Belle, P., Legendre, F., Nattier, R., & Robillard, T. (2024). Early colonization of New Caledonia by ultrasonic crickets from New Guinea (Orthoptera: Gryllidae: Eneopterinae): Historical biogeography and description of a new genus. Systematic Entomology, 50(2), 269–295. Portico. https://doi.org/10.1111/syen.12656
https://doi.org/10.1111/syen.12656
Leandro Aristide, Alfred L. Rosenberger, Marcelo F. Tejedor, S. Ivan Perez, 2015, 'Modeling lineage and phenotypic diversification in the New World monkey (Platyrrhini, Primates) radiation', Molecular Phylogenetics and Evolution, vol. 82, pp. 375-385
https://doi.org/10.1016/j.ympev.2013.11.008
Lechat C., Crous P., & Groenewald J. 2010. The enigma of Calonectria species occurring on leaves of Ilex aquifolium in Europe. IMA Fungus, 1(2): 101-108.
https://doi.org/10.5598/imafungus.2010.01.02.01
Lecroy, Mary, F. Keith Barker. 2006. New species of bush-warbler from Bougainville Island and a monophyletic origin for southwest Pacific Cettia. American Museum Novitates 3511: 1-20.
https://doi.org/10.1206/0003-0082(2006)3511[1:ANSOBF]2.0.CO;2
Lee Ann Galindo, Nicolas Puillandre, José Utge, Pierre Lozouet, Philippe Bouchet, 2016, 'The phylogeny and systematics of the Nassariidae revisited (Gastropoda, Buccinoidea)', Molecular Phylogenetics and Evolution, vol. 99, pp. 337-353
https://doi.org/10.1016/j.ympev.2016.03.019
Lee S., Lee I., & Suh Y. 2005. Molecular evidence for recognizing Antithamnion sparsum (Ceramiales, Rhodophyta) at the species level. Phycologia, 44: 530-535.
https://doi.org/10.2216/0031-8884(2005)44[530:MEFRAS]2.0.CO;2
Lee, J.Y., Joseph L., & Edwards S. 2011. A species tree for the Australo-Papuan fairy-wrens and allies (Aves: Maluridae). Systematic Biology 61 (2): 253-271.
https://doi.org/10.1093/sysbio/syr101
Lee, M. H., Lee, S., Leschen, R. A. B., & Lee, S. (2020). Evolution of feeding habits of sap beetles (Coleoptera: Nitidulidae) and placement of Calonecrinae. Systematic Entomology, 45(4), 911–923. Portico. https://doi.org/10.1111/syen.12441
https://doi.org/10.1111/syen.12441
Lee, S., & Lee, S. (2020). Multigene phylogeny uncovers oviposition-related evolutionary history of Cerambycinae (Coleoptera: Cerambycidae). Molecular Phylogenetics and Evolution, 145, 106707. https://doi.org/10.1016/j.ympev.2019.106707
https://doi.org/10.1016/j.ympev.2019.106707
Lee, W., Han, T., Lee, J.-H., Hong, K.-J., & Park, J. (2017). The complete mitochondrial genome of the subterranean termite,Reticulitermes speratus kyushuensisMorimoto, 1968 (Isoptera: Rhinotermitidae). Mitochondrial DNA Part B, 2(1), 178–179. https://doi.org/10.1080/23802359.2017.1303341
https://doi.org/10.1080/23802359.2017.1303341
Lehtonen S., Tuomisto H., Rouhan G., & Christenhusz M. 2013. Taxonomic Revision of the Fern Genus Osmolindsaea (Lindsaeaceae). Systematic Botany, 38(4): 887-900.
https://doi.org/10.1600/036364413X674896
Lei Yang, Tetsuya Sado, M. Vincent Hirt, Emmanuel Pasco-Viel, M. Arunachalam, Junbing Li, Xuzhen Wang, Jörg Freyhof, Kenji Saitoh, Andrew M. Simons, Masaki Miya, Shunping He, Richard L. Mayden, 2015, 'Phylogeny and polyploidy: Resolving the classification of cyprinine fishes (Teleostei: Cypriniformes)', Molecular Phylogenetics and Evolution, vol. 85, pp. 97-116
https://doi.org/10.1016/j.ympev.2015.01.014
Leocadio Blanco-Bercial, Janet Bradford-Grieve, Ann Bucklin, 2011, 'Molecular phylogeny of the Calanoida (Crustacea: Copepoda)', Molecular Phylogenetics and Evolution, vol. 59, no. 1, pp. 103-113
https://doi.org/10.1016/j.ympev.2011.01.008
Leocádio, M., Simões, M. V. P., Sekerka, L., Schrago, C. G., Mermudes, J. R. M., & Windsor, D. M. (2020). Molecular systematics reveals the origins of subsociality in tortoise beetles (Coleoptera, Chrysomelidae, Cassidinae). Systematic Entomology, 45(4), 894–910. Portico. https://doi.org/10.1111/syen.12434
https://doi.org/10.1111/syen.12434
Lepeco, A., Branstetter, M. G., Melo, G. A. R., Freitas, F. V., Tobin, K. B., Gan, J., Jensen, J., & Almeida, E. A. B. (2024). Phylogenomic insights into the worldwide evolutionary relationships of the stingless bees (Apidae, Meliponini). Molecular Phylogenetics and Evolution, 201, 108219. https://doi.org/10.1016/j.ympev.2024.108219
https://doi.org/10.1016/j.ympev.2024.108219
Lerner, H., M. Klaver, D. Mindell. 2008. Molecular phylogenetics of the Buteonine birds of prey (Accipitridae). The Auk 125 (2): 304-315.
https://doi.org/10.1525/auk.2008.06161
Lerner, Heather R.L., Matthias Meyer, Helen F. James, Michael Hofreiter, Robert C. Fleischer. 2011. Multilocus Resolution of phylogeny and timescale in the extant adaptive radiation of Hawaiian honeycreepers. Current Biology 21 (21): 1838-1844.
https://doi.org/10.1016/j.cub.2011.09.039
Les, D. H., Moody, M. L., & Jacobs, S. W. L. 2005. Phylogeny and systematics of Aponogeton (Aponogetonaceae): The Australian species. Syst. Bot. 30: 503-519.
https://doi.org/10.1600/0363644054782215
Leslie, A. B., Beaulieu, J., Holman, G., Campbell, C. S., Mei, W., Raubeson, L. R., & Mathews, S. (2018). An overview of extant conifer evolution from the perspective of the fossil record. American Journal of Botany, 105(9), 1531–1544. Portico. https://doi.org/10.1002/ajb2.1143
https://doi.org/10.1002/ajb2.1143
Leslie, A. B., J. M. Beaulieu, H. S. Rai, P. R. Crane, M. J. Donoghue, S. Mathews. 2012. Hemisphere-scale differences in conifer evolutionary dynamics. Proceedings of the National Academy of Sciences. 109 (40): 16217-16221.
https://doi.org/10.1073/pnas.1213621109
Letsch, H. and S. Simon. 2013. Insect phylogenomics: new insights on the relationships of lower neopteran orders (Polyneoptera). Systematic Entomology 38 (4): 783-793.
https://doi.org/10.1111/syen.12028
Letsch, H., Balke, M., Kusy, D., McKenna, D. D., Pramesa Narakusumo, R., Sagata, K., Toussaint, E. F. A., White, L. T., & Riedel, A. (2023). Beetle evolution illuminates the geological history of the World’s most diverse tropical archipelago. Ecography, 2023(12). Portico. https://doi.org/10.1111/ecog.06898
https://doi.org/10.1111/ecog.06898
Letsch, H., Balke, M., Toussaint, E. F. A., & Riedel, A. (2019). Historical biogeography of the hyperdiverse hidden snout weevils (Coleoptera, Curculionidae, Cryptorhynchinae). Systematic Entomology, 45(2), 312–326. Portico. https://doi.org/10.1111/syen.12396
https://doi.org/10.1111/syen.12396
Levin, R. A., Myers, N. R., & Bohs, L. (2006). Phylogenetic relationships among the “spiny solanums”(Solanum subgenus Leptostemonum, Solanaceae). American Journal of Botany, 93(1), 157-169.
https://doi.org/10.3732/ajb.93.1.157
Li, C., Olave, M., Hou, Y., Qin, G., Schneider, R. F., Gao, Z., Tu, X., Wang, X., Qi, F., Nater, A., Kautt, A. F., Wan, S., Zhang, Y., Liu, Y., Zhang, H., Zhang, B., Zhang, H., Qu, M., Liu, S., … Lin, Q. (2021). Genome sequences reveal global dispersal routes and suggest convergent genetic adaptations in seahorse evolution. Nature Communications, 12(1). https://doi.org/10.1038/s41467-021-21379-x
https://doi.org/10.1038/s41467-021-21379-x
Li, X., Bai, X., Kergoat, G. J., Pan, Z., & Ren, G. (2020). Phylogenetics, historical biogeography and molecular species delimitation of Gnaptorina Reitter (Coleoptera: Tenebrionidae: Blaptini). Systematic Entomology, 46(1), 239–251. Portico. https://doi.org/10.1111/syen.12459
https://doi.org/10.1111/syen.12459
Li, X., Hash, J. M., Hartop, E., Yang, D., Smith, P. T., & Brown, B. V. (2024). A molecular phylogeny of scuttle flies (Diptera: Phoridae) unveils extensive concordance but intriguing divergences from morphological results. Systematic Entomology, 50(1), 68–81. Portico. https://doi.org/10.1111/syen.12644
https://doi.org/10.1111/syen.12644
Li, Y., Liu, Z., Jarzembowski, E. A., Yin, Z., Huang, D., & Cai, C. (2019). Early evolution of Cupedidae revealed by a mid‐Cretaceous reticulated beetle from Myanmar (Coleoptera: Archostemata). Systematic Entomology, 44(4), 777–786. Portico. https://doi.org/10.1111/syen.12355
https://doi.org/10.1111/syen.12355
Li, Y.-D., Engel, M. S., Tihelka, E., & Cai, C. (2023). Phylogenomics of weevils revisited: data curation and modelling compositional heterogeneity. Biology Letters, 19(9). https://doi.org/10.1098/rsbl.2023.0307
https://doi.org/10.1098/rsbl.2023.0307
Li, Z., Zhang, F., Zhang, W., Marathe, K., Maddison, W. P., & Zhang, J. (2025). Phylogeny of euophryine jumping spiders from ultra‐conserved elements, with evidence on the intersexual coevolution of genitalia (Araneae: Salticidae: Euophryini). Systematic Entomology, 50(3), 554–567. Portico. https://doi.org/10.1111/syen.12669
https://doi.org/10.1111/syen.12669
Li-E Yang, Ying Meng, De-Li Peng, Ze-Long Nie, Hang Sun, 2018, 'Molecular phylogeny of Galium L. of the tribe Rubieae (Rubiaceae) – Emphasis on Chinese species and recognition of a new genus Pseudogalium', Molecular Phylogenetics and Evolution, vol. 126, pp. 221-232
https://doi.org/10.1016/j.ympev.2018.04.004
Lieckfeldt, Elke, Cornelia M. Kullnig, Christian P. Kubicek, Gary J. Samuels, and Thomas Börner. "< i> Trichoderma aureoviride:</i> phylogenetic position and characterization." Mycological Research 105, no. 3 (2001): 313-322.
https://doi.org/10.1017/S0953756201003616
Liede S., & Tuber A. 2000. Sarcostemma R. Br. (Apocynaceae - Asclepiadoideae) - a Controversial Generic Circumscription Reconsidered: Evidence from trnL-F Spacers. Plant Systematics and Evolution, 225: 133-140.
https://doi.org/10.1007/BF00985463
Lily C. Hughes, Guillermo Ortí, Yu Huang, Ying Sun, Carole C. Baldwin, Andrew W. Thompson, Dahiana Arcila, Ricardo Betancur-R., Chenhong Li, Leandro Becker, Nicolás Bellora, Xiaomeng Zhao, Xiaofeng Li, Min Wang, Chao Fang, Bing Xie, Zhuocheng Zhou, Hai Huang, Songlin Chen, Byrappa Venkatesh, Qiong Shi, 2018, 'Comprehensive phylogeny of ray-finned fishes (Actinopterygii) based on transcriptomic and genomic data', Proceedings of the National Academy of Sciences, vol. 115, no. 24, pp. 6249-6254
https://doi.org/10.1073/pnas.1719358115
Lima C.S., Pfenning L.H., Costa S., Abreu L.M., & Leslie J. 2012. Fusarium tupiense sp. nov., a member of the Gibberella fujikuroi complex that causes mango malformation in Brazil. Mycologia , 104(6): 1408-1419.
https://doi.org/10.3852/12-052
Lindner D., & Banik M. 2008. Molecular phylogeny of Laetiporus and other brown-rot polypore genera in North America. Mycologia, 100(3): 417-430.
https://doi.org/10.3852/07-124R2
Ling Ming Tsang, Ka Hou Chu, Yair Achituv, Benny Kwok Kan Chan, 2015, 'Molecular phylogeny of the acorn barnacle family Tetraclitidae (Cirripedia: Balanomorpha: Tetraclitoidea): Validity of shell morphology and arthropodal characteristics in the systematics of Tetraclitid barnacles', Molecular Phylogenetics and Evolution, vol. 82, pp. 324-329
https://doi.org/10.1016/j.ympev.2014.09.015
Ling Ming Tsang, Ka Hou Chu, Yoko Nozawa, Benny Kwok Kan Chan, 2014, 'Morphological and host specificity evolution in coral symbiont barnacles (Balanomorpha: Pyrgomatidae) inferred from a multi-locus phylogeny', Molecular Phylogenetics and Evolution, vol. 77, pp. 11-22
https://doi.org/10.1016/j.ympev.2014.03.002
Ling-Yun Chen, Guido W. Grimm, Qing-Feng Wang, Susanne S. Renner, 2015, 'A phylogeny and biogeographic analysis for the Cape-Pondweed family Aponogetonaceae (Alismatales)', Molecular Phylogenetics and Evolution, vol. 82, pp. 111-117
https://doi.org/10.1016/j.ympev.2014.10.007
Linse, Katrin, Jennifer A. Jackson, Elaine Fitzcharles, Chester J. Sands, John S. Buckeridge. 2013. Phylogenetic position of Antarctic Scalpelliformes (Crustacea: Cirripedia: Thoracica). Deep Sea Research Part I: Oceanographic Research Papers 73:99-116.
https://doi.org/10.1016/j.dsr.2012.11.006
Liu, B., Alström, P., Olsson, U., Fjeldså, J., Quan, Q., Roselaar, K. C. S., Saitoh, T., Yao, C., Hao, Y., Wang, W., Qu, Y., & Lei, F. (2017). Explosive radiation and spatial expansion across the cold environments of the Old World in an avian family. Ecology and Evolution, 7(16), 6346–6357. Portico. https://doi.org/10.1002/ece3.3136
https://doi.org/10.1002/ece3.3136
Liu, G., Liu, M., Hui, W., Chen, C., & Zhang, Y. (2016). Complete mitochondrial genome of Polyphaga plancyi (Blattaria: Polyphagidae). Mitochondrial DNA Part B, 1(1), 625–626. https://doi.org/10.1080/23802359.2016.1214545
https://doi.org/10.1080/23802359.2016.1214545
Liu, J., Yang, Y., Yan, Z., Wang, H., Bai, M., Shi, C., & Li, J. (2023). Analysis of the Mitogenomes of Two Helotid Species Provides New Insights into the Phylogenetic Relationship of the Basal Cucujoidea (Insecta: Coleoptera). Biology, 12(1), 135. https://doi.org/10.3390/biology12010135
https://doi.org/10.3390/biology12010135
Liu, J., Zhang, J., Han, W., Wang, Y., He, S., & Wang, Z. (2023). Advances in the understanding of Blattodea evolution: Insights from phylotranscriptomics and spermathecae. Molecular Phylogenetics and Evolution, 182, 107753. https://doi.org/10.1016/j.ympev.2023.107753
https://doi.org/10.1016/j.ympev.2023.107753
Lohmann, L. G., Bell, C. D., Calió, M. F., & Winkworth, R. C. (2013). Pattern and timing of biogeographical history in the Neotropical tribe Bignonieae (Bignoniaceae). Botanical Journal of the Linnean Society, 171(1), 154-170.
https://doi.org/10.1111/j.1095-8339.2012.01311.x
Lombard L., Crous P., Wingfield B., & Wingfield M.J. 2010. Multigene phylogeny and mating tests reveal three cryptic species related to Calonectria pauciramosa. Studies in Mycology, 66: 15-30.
https://doi.org/10.3114/sim.2010.66.02
Lombard L., Rodas C., Crous P., Wingfield B., & Wingfield M.J. 2009. Calonectria (Cylindrocladium) species associated with dying Pinus cuttings. Persoonia, 23: 41-47.
https://doi.org/10.3767/003158509x471052
Lombard L., Zhou X., Crous P., Wingfield B., & Wingfield M.J. 2010. Calonectria species associated with cutting rot of Eucalyptus. Persoonia, 24: 1-11.
https://doi.org/10.3767/003158510X486568
Long-Hai Zou, Jiu-Xiang Huang, Guo-Qiang Zhang, Zhong-Jian Liu, Xue-Ying Zhuang, 2015, 'A molecular phylogeny of Aeridinae (Orchidaceae: Epidendroideae) inferred from multiple nuclear and chloroplast regions', Molecular Phylogenetics and Evolution, vol. 85, pp. 247-254
https://doi.org/10.1016/j.ympev.2015.02.014
Lopes, F., Oliveira, L. R., Kessler, A., Beux, Y., Crespo, E., Cárdenas-Alayza, S., Majluf, P., Sepúlveda, M., Brownell, R. L., Franco-Trecu, V., Páez-Rosas, D., Chaves, J., Loch, C., Robertson, B. C., Acevedo-Whitehouse, K., Elorriaga-Verplancken, F. R., Kirkman, S. P., Peart, C. R., Wolf, J. B. W., & Bonatto, S. L. (2020). Phylogenomic Discordance in the Eared Seals is best explained by Incomplete Lineage Sorting following Explosive Radiation in the Southern Hemisphere. Systematic Biology, 70(4), 786–802. https://doi.org/10.1093/sysbio/syaa099
https://doi.org/10.1093/sysbio/syaa099
Lopez-Osorio, F., Perrard, A., Pickett, K. M., Carpenter, J. M., & Agnarsson, I. (2015). Phylogenetic tests reject Emery’s rule in the evolution of social parasitism in yellowjackets and hornets (Hymenoptera: Vespidae, Vespinae). Royal Society Open Science, 2(9), 150159. https://doi.org/10.1098/rsos.150159
https://doi.org/10.1098/rsos.150159
Lopez-Osorio, Federico, Kurt M. Pickett, James M. Carpenter, Bryan A. Ballif, Ingi Agnarsson. 2014. Phylogenetic relationships of yellowjackets inferred from nine loci (Hymenoptera: Vespidae, Vespinae, Vespula and Dolichovespula). Molecular Phylogenetics and Evolution 73: 190-201.
https://doi.org/10.1016/j.ympev.2014.01.007
Lorch J.M., Lindner D.L., Gargas A., Muller L.K., Minnis A.M., & Blehert D.S. 2012. A culture-based survey of fungi in soil from bat hibernacula in the eastern United States and its implications for detection of Geomyces destructans, the causal agent of bat white-nose syndrome. Mycologia, 105(2), 2013, pp. 237–252.
https://doi.org/10.3852/12-207
Lourie, Sara (2016) Seahorses: a life-size guide to every species. Ivy Press, UK (ISBN 978-1-78240-321-0)
http://press.uchicago.edu/ucp/books/book/chicago/S/bo23519815.html
Lovette, Irby J., Brian S. Arbogast, Robert L. Curry, Robert M. Zink, Carlos A. Botero, John P. Sullivan, Amanda L. Talaba, Rebecca B. Harris, Dustin R. Rubenstein, Robert E. Ricklefs, Eldredge Bermingham. 2012. Phylogenetic relationships of the mockingbirds and thrashers (Aves: Mimidae). Molecular Phylogenetics and Evolution 63 (2): 219-229.
https://doi.org/10.1016/j.ympev.2011.07.009
Lovette, Irby J., Dustin R. Rubenstein. 2007. A comprehensive molecular phylogeny of the starlings (Aves: Sturnidae) and mockingbirds (Aves: Mimidae): congruent mtDNA and nuclear trees for a cosmopolitan avian radiation. Molecular Phylogenetics and Evolution 44 (3): 1031-1056.
https://doi.org/10.1016/j.ympev.2007.03.017
Lovette, Irby J., Jorge L. Pérez-Emán, John P. Sullivan, Richard C. Banks, Isabella Fiorentino, Sergio Córdoba-Córdoba, María Echeverry-Galvis, F. Keith Barker, Kevin J. Burns, John Klicka, Scott M. Lanyon, Eldredge Bermingham. 2010. A comprehensive multilocus phylogeny for the wood-warblers and a revised classification of the Parulidae (Aves). Molecular Phylogenetics and Evolution 57 (2): 753-770.
https://doi.org/10.1016/j.ympev.2010.07.018
Lu B., Druzhinina I., Fallah P., Chaverri P., Gradinger C., Kubicek C., & Samuels G. 2003. Hypocrea/Trichoderma species with pachybasium-like conidiophores: teleomorphs for T. minutisporum and T. polysporum, and their newly discovered relatives. Mycologia, 96(2), 2004, pp. 310–342
No link provided! Try
Google Scholar or
CrossRef.org
Lubbe, Carolien M., Sandra Denman, Paul F. Cannon, JZ Ewald Groenewald, Sandra C. Lamprecht, and Pedro W. Crous. "Characterization of Colletotrichum species associated with diseases of Proteaceae." Mycologia 96, no. 6 (2004): 1268-1279.
https://doi.org/10.2307/3762144
Lucas Leclere, Peter Schuchert, Corinne Cruaud , Arnaud Couloux, Michael Manuel, 2009. Molecular phylogenetics of Thecata (Hydrozoa, Cnidaria) reveals long-term maintenance of life history traits despite high frequency of recent character changes. Systematic Biology 58 (5): 509-526.
https://doi.org/10.1093/sysbio/syp044
Lucas Leclère, Peter Schuchert, Michaël Manuel, 2007, 'Phylogeny of the Plumularioidea (Hydrozoa, Leptothecata): evolution of colonial organisation and life cycle', Zoologica Scripta, vol. 36, no. 4, pp. 371-394
https://doi.org/10.1111/j.1463-6409.2007.00283.x
Luciano Paganucci de Queiroz, José Floriano B. Pastore, Domingos Cardoso, Cristiane Snak, Ana Luísa de C. Lima, Edeline Gagnon, Mohammad Vatanparast, Ailsa E. Holland, Ashley N. Egan, 2015, 'A multilocus phylogenetic analysis reveals the monophyly of a recircumscribed papilionoid legume tribe Diocleae with well-supported generic relationships', Molecular Phylogenetics and Evolution, vol. 90, pp. 1-19
https://doi.org/10.1016/j.ympev.2015.04.016
Luebert, F., & Wen, J. (2008). Phylogenetic analysis and evolutionary diversification of Heliotropium sect. Cochranea (Heliotropiaceae) in the Atacama Desert. Systematic Botany, 33(2), 390-402.
https://doi.org/10.1600/036364408784571635
Luisa F. Dueñas, Phil Alderslade, Juan A. Sánchez, 2014, 'Molecular systematics of the deep-sea bamboo corals (Octocorallia: Isididae: Keratoisidinae) from New Zealand with descriptions of two new species of Keratoisis', Molecular Phylogenetics and Evolution, vol. 74, pp. 15-28
https://doi.org/10.1016/j.ympev.2014.01.031
Luke B. Klicka, Barbara E. Kus, Pascal O. Title, Kevin J. Burns, 2015, 'Conservation genomics reveals multiple evolutionary units within Bell’s Vireo (Vireo bellii)', Conservation Genetics, vol. 17, no. 2, pp. 455-471
https://doi.org/10.1007/s10592-015-0796-z
Lukhaup, C., & Eprilurahman, R. (2022). A new species of crayfish of the genus Cherax from Indonesian New Guinea (Crustacea, Decapoda, Parastacidae). Zoosystematics and Evolution, 98(2), 411–425. https://doi.org/10.3897/zse.98.94753
https://doi.org/10.3897/zse.98.94753
Lukhaup, C., Panteleit, J., & Schrimpf, A. (2015). Cherax snowden, a new species of crayfish (Crustacea, Decapoda, Parastacidae) from the Kepala Burung (Vogelkop) Peninsula in Irian Jaya (West Papua), Indonesia. ZooKeys, 518, 1–14. https://doi.org/10.3897/zookeys.518.6127
https://doi.org/10.3897/zookeys.518.6127
Lukhaup, C.; Eprilurahman, R.; von Rintelen, T. Two New Species of Crayfish of the Genus Cherax (Crustacea, Decapoda, Parastacidae) from Western and Eastern Indonesian New Guinea. Arthropoda 2024, 2, 264-293. https://doi.org/10.3390/arthropoda2040019
https://www.mdpi.com/2813-3323/2/4/19
Lundberg J.G., Sullivan J., Rodiles-hernandez R., & Hendrickson D. 2007. Discovery of African roots for the Mesoamerican Chiapas catfish, Lacantunia enigmatica, requires an ancient intercontinental passage. Proceedings of the Academy of Natural Sciences of Philadelphia, 156: 39-53.
https://doi.org/10.1635/0097-3157(2007)156[39:doarft]2.0.co;2
Lundberg, J.G. (1992). The phylogeny of ictalurid catfishes: A synthesis of recent work. In Systematics, Historical Ecology, and North American Freshwater Fishes (R. I. Mayden, Ed.) pp. 392-420.
https://books.google.com/books?id=t0urAAAAIAAJ&pg=PA392&lpg=PA392&dq=%22the+phylogeny+of+ictalurid+catfishes:+a+synthesis&source=bl&ots=JlQq8UiviJ&sig=inJk4j125nRH3KbspGUx1MJn2so&hl=en&sa=X&ved=0ahUKEwj8uOb6n4nLAhUBqB4KHQmhBNEQ6AEILDAC#v=onepage&q=%22the%20phylogeny%20of%20ictalurid%20catfishes%3A%20a%20synthesis&f=false
Luo, X., Deng, W., Han, W., Lo, N., Cai, J., Che, Y., & Wang, Z. (2025). Revision of the cockroach subfamily Blattinae based on morphological and molecular analyses. Systematic Entomology, 50(4), 836–854. Portico. https://doi.org/10.1111/syen.12680
https://doi.org/10.1111/syen.12680
Luque J., Christy J., Hendy A.J., Rosenberg M., Portell R.W., Kerr K.A., & Palmer A.R. 2017. Quaternary intertidal and supratidal crabs (Decapoda, Brachyura) from tropical America and the systematic affinities of fossil fiddler crabs. Journal of Systematic Palaeontology, 00(00): 0000.
https://doi.org/10.1080/14772019.2017.1362599
Luque, Jordi, Soledad Martos, and Alan JL Phillips. "Botryosphaeria viticola sp. nov. on grapevines: a new species with a Dothiorella anamorph." Mycologia 97.5 (2005): 1111-1121.
https://doi.org/10.3852/mycologia.97.5.1111
Luque, Jordi, Soledad Martos, and Alan JL Phillips. "Botryosphaeria viticola sp. nov. on grapevines: a new species with a Dothiorella anamorph." Mycologia 97.5 (2005): 1111-1121.
https://doi.org/10.3852/mycologia.97.5.1111
Lutz M., Bauer R., Begerow D., & Oberwinkler F. 2004. Tuberculina-Thanatophytum/rhizoctonia crocorum-Helicobasidium: a unique mycoparasitic-phytoparasitic life strategy. Mycological Research, 108(3): 227-238.
https://doi.org/10.1017/S0953756204009359
Lutz, Holly L., Jason D. Weckstein, José S.L. Patané, John M. Bates, Alexandre Aleixo. 2013. Biogeography and spatio-temporal diversification of Selenidera and Andigena Toucans (Aves: Ramphastidae). Molecular Phylogenetics and Evolution 69 (3): 873-883.
https://doi.org/10.1016/j.ympev.2013.06.017
Luz E. Ochoa, Fabio F. Roxo, Carlos DoNascimiento, Mark H. Sabaj, Aléssio Datovo, Michael Alfaro, Claudio Oliveira, 2017, 'Multilocus analysis of the catfish family Trichomycteridae (Teleostei: Ostariophysi: Siluriformes) supporting a monophyletic Trichomycterinae', Molecular Phylogenetics and Evolution, vol. 115, pp. 71-81
https://doi.org/10.1016/j.ympev.2017.07.007
Lydia L. Smith, Jennifer L. Fessler, Michael E. Alfaro, J. Todd Streelman, Mark W. Westneat, 2008, 'Phylogenetic relationships and the evolution of regulatory gene sequences in the parrotfishes', Molecular Phylogenetics and Evolution, vol. 49, no. 1, pp. 136-152
https://doi.org/10.1016/j.ympev.2008.06.008
LÓPEZ‐PÉREZ, S., ZARAGOZA‐CABALLERO, S., OCHOTERENA, H., & MORRONE, J. J. (2017). A phylogenetic study of the worldwide tribe Cassidini Gyllenhal, 1813 (Coleoptera: Chrysomelidae: Cassidinae) based on morphological data. Systematic Entomology, 43(2), 372–386. Portico. https://doi.org/10.1111/syen.12280
https://doi.org/10.1111/syen.12280
Léveillé-bourret É., Gilmour C.N., Starr J.R., Naczi R.F., Daniel S., & Sytsma K.J. 2014. Searching for the sister to sedges (Carex): resolving relationships within the Cariceae-Dulichieae-Scirpeae clade (Cyperaceae). Botanical Journal of the Linnean Society, 176(1): 1-21.
https://doi.org/10.1111/boj.12193
López Berrizbeitia, M. F., Hastriter, M. W., Barquez, R. M., & Díaz, M. M. (2019). Fleas of the genus Tetrapsyllus (Siphonaptera:Rhopalopsyllidae) associated with rodents from Northwestern Argentina. International Journal for Parasitology: Parasites and Wildlife, 9, 80–89. https://doi.org/10.1016/j.ijppaw.2019.03.001
https://doi.org/10.1016/j.ijppaw.2019.03.001
M. Gelardi, G. Simonini, E. Ercole, A. Vizzini, 2014, 'Alessioporus and Pulchroboletus (Boletaceae, Boletineae), two novel genera for Xerocomus ichnusanus and X. roseoalbidus from the European Mediterranean basin: molecular and morphological evidence', Mycologia, vol. 106, no. 6, pp. 1168-1187
https://doi.org/10.3852/14-042
M. Groussin, M. Gouy, 2011, 'Adaptation to Environmental Temperature Is a Major Determinant of Molecular Evolutionary Rates in Archaea', Molecular Biology and Evolution, vol. 28, no. 9, pp. 2661-2674
https://doi.org/10.1093/molbev/msr098
M. Helmkampf, I. Bruchhaus, B. Hausdorf, 2008, 'Phylogenomic analyses of lophophorates (brachiopods, phoronids and bryozoans) confirm the Lophotrochozoa concept', Proceedings of the Royal Society B: Biological Sciences, vol. 275, no. 1645, pp. 1927-1933
https://doi.org/10.1098/rspb.2008.0372
M. J. Trappe, M. E. Smith, E. A. Hobbie, 2015, 'Exploring the phylogenetic affiliations and the trophic mode of Sedecula pulvinata (Sedeculaceae)', Mycologia, vol. 107, no. 4, pp. 688-696
https://doi.org/10.3852/14-110
M. Klautau, F. Azevedo, B. Condor-Lujan, H. T. Rapp, A. Collins, C. A. d. M. Russo, 2013, 'A Molecular Phylogeny for the Order Clathrinida Rekindles and Refines Haeckel's Taxonomic Proposal for Calcareous Sponges', Integrative and Comparative Biology, vol. 53, no. 3, pp. 447-461
https://doi.org/10.1093/icb/ict039
M. N Dawson, A. S. Gupta, M. H. England, 2005, 'Coupled biophysical global ocean model and molecular genetic analyses identify multiple introductions of cryptogenic species', Proceedings of the National Academy of Sciences, vol. 102, no. 34, pp. 11968-11973
https://doi.org/10.1073/pnas.0503811102
M. Taniguchi, 2004, 'Molecular phylogeny of Neocalanus copepods in the subarctic Pacific Ocean, with notes on non-geographical genetic variations for Neocalanus cristatus', Journal of Plankton Research, vol. 26, no. 10, pp. 1249-1255
https://doi.org/10.1093/plankt/fbh115
MANPREET KAUR KOHLI, THOMAS SCHNEIDER, OLE MÜLLER, JESSICA L. WARE, 2013, 'Counting the spots: a molecular and morphological phylogeny of the spotted darnerBoyeria(Odonata: Anisoptera: Aeshnidae) with an emphasis on European taxa', Systematic Entomology, vol. 39, no. 1, pp. 190-195
https://doi.org/10.1111/syen.12049
MARTIM MELO, JÉRÔME FUCHS, 2008, 'Phylogenetic relationships of the Gulf of Guinea Alcedo kingfishers', Ibis, vol. 150, no. 3, pp. 633-639
https://doi.org/10.1111/j.1474-919x.2008.00826.x
MCELRATH, T. C., ROBERTSON, J. A., THOMAS, M. C., OSBORNE, J., MILLER, K. B., MCHUGH, J. V., & WHITING, M. F. (2015). A molecular phylogenetic study of <scp>C</scp>ucujidae s.l. (<scp>C</scp>oleoptera: <scp>C</scp>ucujoidea). Systematic Entomology, 40(4), 705–718. Portico. https://doi.org/10.1111/syen.12133
https://doi.org/10.1111/syen.12133
MICHAT, M. C., ALARIE, Y., & MILLER, K. B. (2017). Higher‐level phylogeny of diving beetles (<scp>C</scp>oleoptera: <scp>D</scp>ytiscidae) based on larval characters. Systematic Entomology, 42(4), 734–767. Portico. https://doi.org/10.1111/syen.12243
https://doi.org/10.1111/syen.12243
MICÓ, E., MORÓN, M. Á., ŠÍPEK, P., & GALANTE, E. (2007). Larval morphology enhances phylogenetic reconstruction in Cetoniidae (Coleoptera: Scarabaeoidea) and allows the interpretation of the evolution of larval feeding habits. Systematic Entomology, 33(1), 128–144. Portico. https://doi.org/10.1111/j.1365-3113.2007.00399.x
https://doi.org/10.1111/j.1365-3113.2007.00399.x
MILLER, K. B., & BERGSTEN, J. (2012). Phylogeny and classification of whirligig beetles (Coleoptera: Gyrinidae): relaxed‐clock model outperforms parsimony and time‐free Bayesian analyses. Systematic Entomology, 37(4), 706–746. Portico. https://doi.org/10.1111/j.1365-3113.2012.00640.x
https://doi.org/10.1111/j.1365-3113.2012.00640.x
MOORE, M. R., BEZA‐BEZA, C. F., WICKELL, D. A., BECK, J. B., & JAMESON, M. L. (2015). Molecules, morphology and <scp>M</scp>imeoma scarabs: evolutionary and taxonomic implications for a palm‐associated scarab group. Systematic Entomology, 40(4), 891–900. Portico. https://doi.org/10.1111/syen.12139
https://doi.org/10.1111/syen.12139
Maddison, D. R., & Porch, N. (2021). A preliminary phylogeny and review of the genus Tasmanitachoides, with descriptions of two new species (Coleoptera, Carabidae, Bembidarenini). ZooKeys, 1044, 153–196. https://doi.org/10.3897/zookeys.1044.62253
https://doi.org/10.3897/zookeys.1044.62253
Maddison, D. R., Kanda, K., Boyd, O. F., Faille, A., Porch, N., Erwin, T. L., & Roig-Juñent, S. (2019). Phylogeny of the beetle supertribe Trechitae (Coleoptera: Carabidae): Unexpected clades, isolated lineages, and morphological convergence. Molecular Phylogenetics and Evolution, 132, 151–176. https://doi.org/10.1016/j.ympev.2018.11.006
https://doi.org/10.1016/j.ympev.2018.11.006
Madeline B Girard, Damian O Elias, Guilherme Azevedo, Ke Bi, Michael M Kasumovic, Julianne M Waldock, Erica Bree Rosenblum, Marshal Hedin, Phylogenomics of peacock spiders and their kin (Salticidae: Maratus), with implications for the evolution of male courtship displays, Biological Journal of the Linnean Society, 2021
https://doi.org/10.1093/biolinnean/blaa165
Magallón, Susana, Sandra Gómez-Acevedo, Luna L. Sánchez-Reyes, Tania Hernández-Hernández. 2015. A metacalibrated time-tree documents the early rise of flowering plant phylogenetic diversity. New Phytologist 207 (2): 437-453
https://doi.org/10.1111/nph.13264
Magro, A., Lecompte, E., Magné, F., Hemptinne, J.-L., & Crouau-Roy, B. (2010). Phylogeny of ladybirds (Coleoptera: Coccinellidae): Are the subfamilies monophyletic? Molecular Phylogenetics and Evolution, 54(3), 833–848. https://doi.org/10.1016/j.ympev.2009.10.022
https://doi.org/10.1016/j.ympev.2009.10.022
Mahler, D. L., T. Ingram, L. J. Revell, J. B. Losos. 2013. Exceptional Convergence on the Macroevolutionary Landscape in Island Lizard Radiations. Science 341 (6143): 292-295.
https://doi.org/10.1126/science.1232392
Mahlerová, K., Jakubec, P., Krak, K., & Růžička, J. (2024). Resolving the intergeneric phylogeny of the large carrion beetles (<scp>Staphylinidae: Silphinae: Silphini</scp>). Systematic Entomology, 50(1), 168–179. Portico. https://doi.org/10.1111/syen.12650
https://doi.org/10.1111/syen.12650
Mann, Nigel I., F. Keith Barker, Jeff A. Graves, Kimberly A. Dingess-Mann, Peter J.B. Slater. 2006. Molecular data delineate four genera of “Thryothorus” wrens. Molecular Phylogenetics and Evolution 40 (3): 750-759
https://doi.org/10.1016/j.ympev.2006.04.014
Manns U., & Anderberg A. 2005. Molecular phylogeny of Anagallis (Myrsinaceae) based on ITS, trnL-F and ndhF sequence data. International Journal of Plant Sciences, 166: 1019-1028.
https://doi.org/10.1086/449318
Manzanilla V., & Bruneau A. 2012. Phylogeny reconstruction in the Caesalpinieae grade
(Leguminosae) based on duplicated copies of the sucrose synthase gene and plastid
markers. Molecular Phylogenetics and Evolution. 65: 149–162.
https://doi.org/10.1016/j.ympev.2012.05.035
Marazzi B., & Sanderson M.J. 2010. Large-Scale Patterns of Diversification in the Widespread Legume Genus Senna and the Evolutionary Role of Extrafloral Nectaries. Evolution, 64(12): 3570-3592.
https://doi.org/10.1111/j.1558-5646.2010.01086.x
Marc S. Appelhans, Niklas Reichelt, Milton Groppo, Claudia Paetzold, Jun Wen, 2018, 'Phylogeny and biogeography of the pantropical genus Zanthoxylum and its closest relatives in the proto-Rutaceae group (Rutaceae)', Molecular Phylogenetics and Evolution, vol. 126, pp. 31-44
https://doi.org/10.1016/j.ympev.2018.04.013
Marcela G.M. Lima, José de Sousa e Silva-Júnior, David Černý, Janet C. Buckner, Alexandre Aleixo, Jonathan Chang, Jimmy Zheng, Michael E. Alfaro, Amely Martins, Anthony Di Fiore, Jean P. Boubli, Jessica W. Lynch Alfaro, 2018, 'A phylogenomic perspective on the robust capuchin monkey ( Sapajus ) radiation: First evidence for extensive population admixture across South America', Molecular Phylogenetics and Evolution, vol. 124, pp. 137-150
https://doi.org/10.1016/j.ympev.2018.02.023
Marcelo R. Britto, 2003, 'Phylogeny of the subfamily Corydoradinae Hoedeman, 1952 (Siluriformes: Callichthyidae), with a definition of its genera', Proceedings of the Academy of Natural Sciences of Philadelphia, vol. 153, no. 1, pp. 119-154
https://doi.org/10.1635/0097-3157(2003)153[0119:potsch]2.0.co;2
Marcos Pérez-Losada, Margaret Harp, Jens T. Høeg, Yair Achituv, Diana Jones, Hiromi Watanabe, Keith A. Crandall. 2008. The tempo and mode of barnacle evolution. Molecular Phylogenetics and Evolution 46(1):328-346.
https://doi.org/10.1016/j.ympev.2007.10.004
Margarita Metallinou, Edwin Nicholas Arnold, Pierre-André Crochet, Philippe Geniez, José Carlos Brito, Petros Lymberakis, Sherif Baha El Din, Roberto Sindaco, Michael Robinson, Salvador Carranza, 2012, 'Conquering the Sahara and Arabian deserts: systematics and biogeography of Stenodactylus geckos (Reptilia: Gekkonidae)', BMC Evolutionary Biology, vol. 12, no. 1, p. 258
https://doi.org/10.1186/1471-2148-12-258
Maria Celia Machel Defrance Malay, François Michonneau, 2014, 'Phylogenetics and morphological evolution of coral-dwelling barnacles (Balanomorpha: Pyrgomatidae)', Biological Journal of the Linnean Society, pp. n/a-n/a
https://doi.org/10.1111/bij.12315
Maria Eduarda Alves Santos, Marcelo Visentini Kitahara, Alberto Lindner, James Davis Reimer, 2015, 'Overview of the order Zoantharia (Cnidaria: Anthozoa) in Brazil', Marine Biodiversity, vol. 46, no. 3, pp. 547-559
https://doi.org/10.1007/s12526-015-0396-7
Mariangeles Arce H., Roberto E. Reis, Anthony J. Geneva, Mark H. Sabaj Pérez, 2013, 'Molecular phylogeny of thorny catfishes (Siluriformes: Doradidae)', Molecular Phylogenetics and Evolution, vol. 67, no. 3, pp. 560-577
https://doi.org/10.1016/j.ympev.2013.02.021
Marianne Espeland, Jason P.W. Hall, Philip J. DeVries, David C. Lees, Mark Cornwall, Yu-Feng Hsu, Li-Wei Wu, Dana L. Campbell, Gerard Talavera, Roger Vila, Shayla Salzman, Sophie Ruehr, David J. Lohman, Naomi E. Pierce, 2015, 'Ancient Neotropical origin and recent recolonisation: Phylogeny, biogeography and diversification of the Riodinidae (Lepidoptera: Papilionoidea)', Molecular Phylogenetics and Evolution, vol. 93, pp. 296-306
https://doi.org/10.1016/j.ympev.2015.08.006
Marianne Espeland, Jesse Breinholt, Keith R. Willmott, Andrew D. Warren, Roger Vila, Emmanuel F.A. Toussaint, Sarah C. Maunsell, Kwaku Aduse-Poku, Gerard Talavera, Rod Eastwood, Marta A. Jarzyna, Robert Guralnick, David J. Lohman, Naomi E. Pierce, Akito Y. Kawahara, 2018, 'A Comprehensive and Dated Phylogenomic Analysis of Butterflies', Current Biology, vol. 28, no. 5, pp. 770-778.e5
https://doi.org/10.1016/j.cub.2018.01.061
Mario Hoenemann, William F. Humphreys, Difei Li, Marco T. Neiber, Stefan Koenemann, Thomas M. Iliffe, Frederick R. Schram, 2013, 'Phylogenetic analysis and systematic revision of Remipedia (Nectiopoda) from Bayesian analysis of molecular data', Journal of Crustacean Biology, vol. 33, no. 5, pp. 603-619
https://doi.org/10.1163/1937240x-00002179
Marisol Sánchez-García, Patrick Brandon Matheny, 2016, 'Is the switch to an ectomycorrhizal state an evolutionary key innovation in mushroom-forming fungi? A case study in the Tricholomatineae (Agaricales)', Evolution, vol. 71, no. 1, pp. 51-65
https://doi.org/10.1111/evo.13099
Mark S. Springer, Christopher A. Emerling, Robert W. Meredith, Jan E. Janečka, Eduardo Eizirik, William J. Murphy, 2017, 'Waking the undead: Implications of a soft explosive model for the timing of placental mammal diversification', Molecular Phylogenetics and Evolution, vol. 106, pp. 86-102
https://doi.org/10.1016/j.ympev.2016.09.017
Mark W. Westneat, Michael E. Alfaro, 2005, 'Phylogenetic relationships and evolutionary history of the reef fish family Labridae', Molecular Phylogenetics and Evolution, vol. 36, no. 2, pp. 370-390
https://doi.org/10.1016/j.ympev.2005.02.001
Marki, Petter Z., Knud A. Jønsson, Martin Irestedt, Jacqueline M.T. Nguyen, Carsten Rahbek, Jon Fjeldså. 2017. Supermatrix phylogeny and biogeography of the Australasian Meliphagides radiation (Aves: Passeriformes). Molecular Phylogenetics and Evolution 107: 516-529
https://doi.org/10.1016/j.ympev.2016.12.021
Marks, Ben D., Jason D. Weckstein, Robert G. Moyle. 2007. Molecular phylogenetics of the bee-eaters (Aves: Meropidae) based on nuclear and mitochondrial DNA sequence data. Molecular Phylogenetics and Evolution 45 (1): 23-32.
https://doi.org/10.1016/j.ympev.2007.07.004
Marlowe K., & Hufford L. 2006. Taxonomy and biogeography of Gaillardia (Asteraceae): a phylogenetic analysis. Systematic Botany, 32(1), 208-226.
https://doi.org/10.1600/036364407780360229
Martin Dohrmann, Christopher Kelley, Michelle Kelly, Andrzej Pisera, John N. A. Hooper, Henry M. Reiswig, 2017, 'An integrative systematic framework helps to reconstruct skeletal evolution of glass sponges (Porifera, Hexactinellida)', Frontiers in Zoology, vol. 14, no. 1
https://doi.org/10.1186/s12983-017-0191-3
Martin Irestedt, Jérôme Fuchs, Knud A. Jønsson, Jan I. Ohlson, Eric Pasquet, Per G.P. Ericson, 2008, 'The systematic affinity of the enigmatic Lamprolia victoriae (Aves: Passeriformes)—An example of avian dispersal between New Guinea and Fiji over Miocene intermittent land bridges?', Molecular Phylogenetics and Evolution, vol. 48, no. 3, pp. 1218-1222
https://doi.org/10.1016/j.ympev.2008.05.038
Martin Malmstrøm, Michael Matschiner, Ole K Tørresen, Bastiaan Star, Lars G Snipen, Thomas F Hansen, Helle T Baalsrud, Alexander J Nederbragt, Reinhold Hanel, Walter Salzburger, Nils C Stenseth, Kjetill S Jakobsen, Sissel Jentoft, 2016, 'Evolution of the immune system influences speciation rates in teleost fishes', Nature Genetics
https://doi.org/10.1038/ng.3645
Martin Schwentner, Thomas C.G. Bosch, 2015, 'Revisiting the age, evolutionary history and species level diversity of the genus Hydra (Cnidaria: Hydrozoa)', Molecular Phylogenetics and Evolution, vol. 91, pp. 41-55
https://doi.org/10.1016/j.ympev.2015.05.013
Martin Stervander, Peter G. Ryan, Martim Melo, Bengt Hansson, 2019, 'The origin of the world’s smallest flightless bird, the Inaccessible Island Rail Atlantisia rogersi (Aves: Rallidae)', Molecular Phylogenetics and Evolution, vol. 130, pp. 92-98
https://doi.org/10.1016/j.ympev.2018.10.007
Martins, F. C., Cox, S. C., Irestedt, M., Prŷs-Jones, R. P., & Day, J. J. (2020). A comprehensive molecular phylogeny of Afrotropical white-eyes (Aves: Zosteropidae) highlights prior underestimation of mainland diversity and complex colonisation history. Molecular Phylogenetics and Evolution, 149, 106843. https://doi.org/10.1016/j.ympev.2020.106843
https://doi.org/10.1016/j.ympev.2020.106843
Martín J. Ramírez, 2014, 'The Morphology And Phylogeny Of Dionychan Spiders (Araneae: Araneomorphae)', Bulletin of the American Museum of Natural History, vol. 390, pp. 1-374
https://doi.org/10.1206/821.1
Masonick, P. K., Knyshov, A., Gordon, E. R. L., Forero, D., Hwang, W. S., Hoey‐Chamberlain, R., Bush, T., Castillo, S., Hernandez, M., Ramirez, J., Standring, S., Zhang, J., & Weirauch, C. (2024). A revised classification of the assassin bugs (Hemiptera: Heteroptera: Reduviidae) based on combined analysis of phylogenomic and morphological data. Systematic Entomology, 50(1), 102–138. Portico. https://doi.org/10.1111/syen.12646
https://doi.org/10.1111/syen.12646
Matsumura, Y., Yao, I., Beutel, R., & Yoshizawa, K. (2014). Molecular phylogeny of the leaf beetle subfamily Criocerinae (Coleoptera: Chrysomelidae) and the correlated evolution of reproductive organs. Arthropod Systematics & Phylogeny, 72(2), 95–110. https://doi.org/10.3897/asp.72.e31887
https://doi.org/10.3897/asp.72.e31887
Matte-Tailliez, Oriane, Céline Brochier, Patrick Forterre and Hervé Philippe. 2002. Archaeal phylogeny based on ribosomal proteins. Molecular Biology and Evolution 19 (5): 631-639.
http://mbe.oxfordjournals.org/content/19/5/631.short
Matthew G. Johnson, Claire Malley, Bernard Goffinet, A. Jonathan Shaw, Norman J. Wickett, 2016, 'A phylotranscriptomic analysis of gene family expansion and evolution in the largest order of pleurocarpous mosses (Hypnales, Bryophyta)', Molecular Phylogenetics and Evolution, vol. 98, pp. 29-40
https://doi.org/10.1016/j.ympev.2016.01.008
Matthew Parks, Richard Cronn, Aaron Liston, 2012, 'Separating the wheat from the chaff: mitigating the effects of noise in a plastome phylogenomic data set from Pinus L. (Pinaceae)', BMC Evolutionary Biology, vol. 12, no. 1, p. 100
https://doi.org/10.1186/1471-2148-12-100
Maximiliano M. Maronna, Thaís P. Miranda, Álvaro L. Peña Cantero, Marcos S. Barbeitos, Antonio C. Marques, 2016, 'Towards a phylogenetic classification of Leptothecata (Cnidaria, Hydrozoa)', Scientific Reports, vol. 6, p. 18075
https://doi.org/10.1038/srep18075
Mayer, V. E., & Voglmayr, H. (2009). Mycelial carton galleries of
Azteca brevis
(Formicidae) as a multi-species network. Proceedings of the Royal Society B: Biological Sciences, 276(1671), 3265–3273. https://doi.org/10.1098/rspb.2009.0768
https://doi.org/10.1098/rspb.2009.0768
Mayuzumi S., & Ohba H. 2004. The phylogenetic position of eastern Asian Sedoideae (Crassulaceae) inferred from chloroplast and nuclear DNA. Systematic Botany, null.
https://doi.org/10.1600/0363644041744329
McCord, C. L., Nash, C. M., Cooper, W. J., & Westneat, M. W. (2021). Phylogeny of the damselfishes (Pomacentridae) and patterns of asymmetrical diversification in body size and feeding ecology. PLOS ONE, 16(10), e0258889. doi:10.1371/journal.pone.0258889
https://doi.org/10.1371/journal.pone.0258889
McCord, Charlene L., Mark W. Westneat. 2016. Phylogenetic relationships and the evolution of BMP4 in triggerfishes and filefishes (Balistoidea). Molecular Phylogenetics and Evolution 94: 397-409
https://doi.org/10.1016/j.ympev.2015.09.014
McCullough, J. M., Joseph, L., Moyle, R. G., & Andersen, M. J. (2019). Ultraconserved elements put the final nail in the coffin of traditional use of the genus
Meliphaga
(Aves: Meliphagidae). Zoologica Scripta, 48(4), 411–418. Portico. https://doi.org/10.1111/zsc.12350
https://doi.org/10.1111/zsc.12350
McCullough, J. M., Moyle, R. G., Smith, B. T., & Andersen, M. J. (2019). A Laurasian origin for a pantropical bird radiation is supported by genomic and fossil data (Aves: Coraciiformes). Proceedings of the Royal Society B: Biological Sciences, 286(1910), 20190122. https://doi.org/10.1098/rspb.2019.0122
https://doi.org/10.1098/rspb.2019.0122
McCullough, J. M., Oliveros, C. H., Benz, B. W., Zenil-Ferguson, R., Cracraft, J., Moyle, R. G., & Andersen, M. J. (2022). Wallacean and Melanesian Islands Promote Higher Rates of Diversification within the Global Passerine Radiation Corvides. Systematic Biology. https://doi.org/10.1093/sysbio/syac044
https://doi.org/10.1093/sysbio/syac044
McGowen, M., Spaulding M., and Gatesy J. 2009. Divergence date estimation and a comprehensive molecular tree of extant cetaceans. Molecular Phylogenetics and Evolution 53 (3): 891-906.
https://doi.org/10.1016/j.ympev.2009.08.018
McGuire, Jimmy A., Christopher C. Witt, J.V. Remsen, Ammon Corl, Daniel L. Rabosky, Douglas L. Altshuler, Robert Dudley. 2014. Molecular phylogenetics and the diversification of hummingbirds. Current Biology 24 (8): 910-916.
https://doi.org/10.1016/j.cub.2014.03.016
McKain, M. R., Chapman, M. A., & Ingram, A. L. (2010). Confirmation of the hybrid origin of Eupatorium× truncatum (Asteraceae) using nuclear and plastid markers. Castanea, 75(3), 381-387.
https://doi.org/10.2179/09-043.1
McKenna, D. D., A. S. Sequeira, A. E. Marvaldi, B. D. Farrell. 2009. Temporal lags and overlap in the diversification of weevils and flowering plants. Proceedings of the National Academy of Sciences 106 (17: 7083-7088
https://doi.org/10.1073/pnas.0810618106
McMahon, M. M., & Sanderson, M. J. 2006. Phylogenetic supermatrix analysis of GenBank sequences from 2228 papilionoid legumes. Syst. Biol. 55: 818-836.
https://doi.org/10.1080/10635150600999150
McNeal, J. R., Bennett, J. R., Wolfe, A. D., & Mathews, S. (2013). Phylogeny and origins of holoparasitism in Orobanchaceae. American journal of botany, 100(5), 971-983.
https://doi.org/10.3732/ajb.1200448
Mckenna, Duane D., Alexander L. Wild, Kojun Kanda, Charles L. Bellamy, Rolf G. Beutel, Michael S. Caterino, Charles W. Farnum, David C. Hawks, Michael A. Ivie, Mary Liz Jameson, Richard A. B. Leschen, Adriana E. Marvaldi, Joseph V. Mchugh, Alfred F. Newton, James A. Robertson, Margaret K. Thayer, Michael F. Whiting, John F. Lawrence, Adam Ślipiński, David R. Maddison, Brian D. Farrell. 2015. The beetle tree of life reveals that Coleoptera survived end-Permian mass extinction to diversify during the Cretaceous terrestrial revolution. Systematic Entomology 40 (4): 835-880
https://doi.org/10.1111/syen.12132
Meeboon J., & Takamatsu S. 2014. Notes on the powdery mildews (Erysiphales) in Japan II. Erysiphe sect. Microsphaera. Mycoscience, 56(1): 230-236.
https://doi.org/10.1016/j.myc.2014.06.007
Meeboon J., & Takamatsu S. 2015. Erysiphe takamatsui, a powdery mildew of lotus: rediscovery of teleomorph after 40 years, morphology and phylogeny. Mycoscience, 56(1): 159-167.
https://doi.org/10.1016/j.myc.2014.05.002
Mehrshid Riahi, Shahin Zarre, Ali Aasghar Maassoumi, Shahrokh Kazempour Osaloo, Martin F. Wojciechowski. 2011. Towards a phylogeny for Astragalus section Caprini (Fabaceae) and its allies based on nuclear and plastid DNA sequences. Plant Syst Evol. 293:119–133.
https://doi.org/10.1007/s00606-011-0417-3
Mei Fang Lin, Wen Hwa Chou, Marcelo V. Kitahara, Chao Lun Allen Chen, David John Miller, Sylvain Forêt, 2016, 'Corallimorpharians are not “naked corals”: insights into relationships between Scleractinia and Corallimorpharia from phylogenomic analyses', PeerJ, vol. 4, p. e2463
https://doi.org/10.7717/peerj.2463
Mel'nik V., Lee S., Groenewald J., & Crous P. 2003. New hyphomycetes from Restionaceae in fynbos: Parasarcopodium ceratocaryi gen. et sp. nov., and Rhexodenticula fusispora sp. nov. Mycological Progress, 3(1), 19-28.
https://doi.org/10.1007/s11557-006-0072-1
Menezes, R. S. T., Lloyd, M. W., & Brady, S. G. (2020). Phylogenomics indicates Amazonia as the major source of Neotropical swarm-founding social wasp diversity. Proceedings of the Royal Society B: Biological Sciences, 287(1928), 20200480. https://doi.org/10.1098/rspb.2020.0480
https://doi.org/10.1098/rspb.2020.0480
Menezes, R. S. T., Noll, F. B., Aragão, M., Hermes, M. G., & Brady, S. G. (2024). Phylomitogenomics reveals mito‐nuclear concordance in social wasps: The performance of mitochondrial markers and gene order for hymenopteran systematics. Systematic Entomology, 49(1), 15–27. Portico. https://doi.org/10.1111/syen.12604
https://doi.org/10.1111/syen.12604
Meng-Yun Chen, Rong-Li Mao, Dan Liang, Masaki Kuro-o, Xiao-Mao Zeng, Peng Zhang, 2015, 'A reinvestigation of phylogeny and divergence times of Hynobiidae (Amphibia, Caudata) based on 29 nuclear genes', Molecular Phylogenetics and Evolution, vol. 83, pp. 1-6
https://doi.org/10.1016/j.ympev.2014.10.010
Meredith, R.W., Janecka J., Gatesy J., Ryder O.A., Fisher C., Teeling E., Goodbla A., Eizirik E., Simao T., Stadler T., Rabosky D., Honeycutt R., Flynn J., Ingram C., Steiner C., Williams T., Robinson T., Herrick A., Westerman M., Ayoub N., Springer M., & Murphy W. 2011. Impacts of the Cretaceous Terrestrial Revolution and KPg Extinction on Mammal Diversification. Science 334 (6055): 521-524.
https://doi.org/10.1126/science.1211028
Metzgar, J. S., Schneider, H., & Pryer, K. M. (2007). Phylogeny and divergence time estimates for the fern genus Azolla (Salviniaceae).International Journal of Plant Sciences, 168(7), 1045-1053
https://doi.org/10.1086/519007
Meusemann, K., Trautwein, M., Friedrich, F., Beutel, R. G., Wiegmann, B. M., Donath, A., Podsiadlowski, L., Petersen, M., Niehuis, O., Mayer, C., Bayless, K. M., Shin, S., Liu, S., Hlinka, O., Minh, B. Q., Kozlov, A., Morel, B., Peters, R. S., Bartel, D., … Yeates, D. K. (2020). Are fleas highly modified Mecoptera? Phylogenomic resolution of Antliophora (Insecta: Holometabola). https://doi.org/10.1101/2020.11.19.390666
https://doi.org/10.1101/2020.11.19.390666
Meyer, Susan LF, Lynn K. Carta, and Stephen A. Rehner. "Morphological variability and molecular phylogeny of the nematophagous fungus Monacrosporium drechsleri." Mycologia 97.2 (2005): 405-415.
https://doi.org/10.3852/mycologia.97.2.405
Miao Sun, Douglas E. Soltis, Pamela S. Soltis, Xinyu Zhu, J. Gordon Burleigh, Zhiduan Chen, 2015, 'Deep phylogenetic incongruence in the angiosperm clade Rosidae', Molecular Phylogenetics and Evolution, vol. 83, pp. 156-166
https://doi.org/10.1016/j.ympev.2014.11.003
Michael D. D'Emic, Roger B.J. Benson, 2013, 'Measurement, variation, and scaling of osteocyte lacunae: a case study in birds', Bone, vol. 57, no. 1, pp. 300-310
https://doi.org/10.1016/j.bone.2013.08.010
Michael E. Alfaro, Brant C. Faircloth, Richard C. Harrington, Laurie Sorenson, Matt Friedman, Christine E. Thacker, Carl H. Oliveros, David Černý, Thomas J. Near, 2018, 'Explosive diversification of marine fishes at the Cretaceous–Palaeogene boundary', Nature Ecology & Evolution, vol. 2, no. 4, pp. 688-696
https://doi.org/10.1038/s41559-018-0494-6
Michael G. Branstetter, Bryan N. Danforth, James P. Pitts, Brant C. Faircloth, Philip S. Ward, Matthew L. Buffington, Michael W. Gates, Robert R. Kula, Seán G. Brady, 2017, 'Phylogenomic Insights into the Evolution of Stinging Wasps and the Origins of Ants and Bees', Current Biology, vol. 27, no. 7, pp. 1019-1025
https://doi.org/10.1016/j.cub.2017.03.027
Michael Janes, Catherine McFadden, Thanongsak Chanmethakul, 2014, 'A new species of Ovabunda (Octocorallia, Xeniidae) from the Andaman Sea, Thailand with notes on the biogeography of this genus', ZooKeys, vol. 431, pp. 1-17
https://doi.org/10.3897/zookeys.431.7751
Michael Tessler, Danielle de Carle, Madeleine L. Voiklis, Olivia A. Gresham, Johannes S. Neumann, Stanisław Cios, Mark E. Siddall, 2018, 'Worms that suck: Phylogenetic analysis of Hirudinea solidifies the position of Acanthobdellida and necessitates the dissolution of Rhynchobdellida', Molecular Phylogenetics and Evolution, vol. 127, pp. 129-134
https://doi.org/10.1016/j.ympev.2018.05.001
Michat, M. C., & Alarie, Y. (2013). Phylogenetic relationships, larval morphology, and chaetotaxy of the subfamily Coptotominae (Coleoptera: Dytiscidae). The Canadian Entomologist, 145(3), 247–264. https://doi.org/10.4039/tce.2012.100
https://doi.org/10.4039/tce.2012.100
Michelangeli, F. A., Dellinger, A. S., Goldenberg, R., Almeda, F., Mendoza-Cifuentes, H., Fernández-Fernández, D., Ulloa Ulloa, C., & Penneys, D. S. (2022). Phylogenetics and Taxonomy of the Tribe Merianieae. Systematics, Evolution, and Ecology of Melastomataceae, 255–273. https://doi.org/10.1007/978-3-030-99742-7_11
https://doi.org/10.1007/978-3-030-99742-7_11
Milani, Nicholas A., Daniel P. Lawrence, A. Elizabeth Arnold, and Hans D. VanEtten. "Origin of Pisatin Demethylase ( PDA) in the genus Fusarium." Fungal Genetics and Biology 49 (2012) 933–942
https://doi.org/10.1016/j.fgb.2012.08.007
Miller A.K., Kerr A.M., Paulay G., Reich M., Wilson N.G., Carvajal J.I., & Rouse G.W. 2017. Molecular phylogeny of extant Holothuroidea (Echinodermata). Molecular Phylogenetics and Evolution, 111: 110-131.
https://doi.org/10.1016/j.ympev.2017.02.014
Miller A.N., & Huhndorf S. 2004. Using phylogenetic species recognition to delimit species boundaries within Lasiosphaeria. Mycologia, 96(5): 1104-1125.
https://doi.org/10.2307/3762093
Miller, Allison K., Alexander M. Kerr, Gustav Paulay, Mike Reich, Nerida G. Wilson, Jose I. Carvajal, Greg W. Rouse, 2017, 'Molecular phylogeny of extant Holothuroidea (Echinodermata)', Molecular Phylogenetics and Evolution, vol. 111, pp. 110-131
https://doi.org/10.1016/j.ympev.2017.02.014
Miller, J. T. [et al. 2003], Grimes, J. W,, Murphy, D. J., Bayer, R. J., & Ladiges, P. Y. 2003. A phylogenetic analysis of the Acacieae and Ingeae (Mimosoideae: Fabaceae) based on trnK, matK, psbA-trnH, and trnL/trnF sequence data. Syst. Bot. 28: 558-566.
https://doi.org/10.1043/02-48.1
Miller, K. B. (2001). Revision and phylogenetic analysis of the New World genus Neoclypeodytes Young (Coleoptera: Dytiscidae: Hydroporinae: Bidessini). Systematic Entomology, 26(1), 87–123. Portico. https://doi.org/10.1046/j.1365-3113.2001.00144.x
https://doi.org/10.1046/j.1365-3113.2001.00144.x
Miller, K. B., Bergsten, J., & Whiting, M. F. (2009). Phylogeny and classification of the tribe Hydaticini (Coleoptera: Dytiscidae): partition choice for Bayesian analysis with multiple nuclear and mitochondrial protein‐coding genes. Zoologica Scripta, 38(6), 591–615. Portico. https://doi.org/10.1111/j.1463-6409.2009.00393.x
https://doi.org/10.1111/j.1463-6409.2009.00393.x
Millicent D. Sanciangco, Kent E. Carpenter, Ricardo Betancur-R., 2016, 'Phylogenetic placement of enigmatic percomorph families (Teleostei: Percomorphaceae)', Molecular Phylogenetics and Evolution, vol. 94, pp. 565-576
https://doi.org/10.1016/j.ympev.2015.10.006
Milá, B., Bruxaux, J., Friis, G., Sam, K., Ashari, H., & Thébaud, C. (2021). A new, undescribed species of
Melanocharis
berrypecker from western New Guinea and the evolutionary history of the family Melanocharitidae. Ibis, 163(4), 1310–1329. Portico. https://doi.org/10.1111/ibi.12981
https://doi.org/10.1111/ibi.12981
Min-Jie Zhu, An-Zhi Ren, Wei Wen, Yu-Bao Gao, 2013, ' Diversity and taxonomy of endophytes from Leymus chinensis in the Inner Mongolia steppe of China ', FEMS Microbiology Letters, vol. 340, no. 2, pp. 135-145
https://doi.org/10.1111/1574-6968.12083
Miranda L.S., Hirano Y.M., Mills C.E., Falconer A., Fenwick D., Marques A.C., & Collins A. 2016. Systematics of stalked jellyfishes (Cnidaria: Staurozoa). PeerJ, .
https://doi.org/10.7717/peerj.1951
Mirande, J. M. (2018). Morphology, molecules and the phylogeny of Characidae (Teleostei, Characiformes). Cladistics, 35(3), 282–300. doi:10.1111/cla.12345
https://doi.org/10.1111/cla.12345
Mirian Watts, Isaac S. Winkler, Christophe Daugeron, Claudio J.B. de Carvalho, Steven P. Turner, Brian M. Wiegmann, 2016, 'Where do the Neotropical Empidini lineages (Diptera: Empididae: Empidinae) fit in a worldwide context?', Molecular Phylogenetics and Evolution, vol. 95, pp. 67-78
https://doi.org/10.1016/j.ympev.2015.10.019
Mishler B., Knerr N., Gonz?lez-orozco C.E., Thornhill A.H., Laffan S., & Miller J.T. 2014. Phylogenetic Measures of Biodiversity and Neo- and Paleo-Endemism in Australian Acacia. Nature Communications, 5(4473).
https://doi.org/10.1038/ncomms5473
Mitchell, Anthony, Jun Wen. 2005. Phylogeny of Brassaiopsis (Araliaceae) in Asia Based on Nuclear ITS and 5S-NTS DNA Sequences. Systematic Botany 30 (4): 872-886
https://doi.org/10.1600/036364405775097761
Mitchell, K. J., B. Llamas, J. Soubrier, N. J. Rawlence, T. H. Worthy, J. Wood, M. S. Y. Lee, A. Cooper. 2014. Ancient DNA reveals elephant birds and kiwi are sister taxa and clarifies ratite bird evolution. Science 344 (6186): 898-900.
https://doi.org/10.1126/science.1251981
Mitchell, Kieren J., Jamie R. Wood, Bastien Llamas, Patricia A. McLenachan, Olga Kardailsky, R. Paul Scofield, Trevor H. Worthy, Alan Cooper. 2016. Ancient mitochondrial genomes clarify the evolutionary history of New Zealand’s enigmatic acanthisittid wrens. Molecular Phylogenetics and Evolution 102: 295-304
https://doi.org/10.1016/j.ympev.2016.05.038
Miya, Masaki, Matt Friedman, Takashi P. Satoh, Hirohiko Takeshima, Tetsuya Sado, Wataru Iwasaki, Yusuke Yamanoue, Masanori Nakatani, Kohji Mabuchi, Jun G. Inoue, Jan Yde Poulsen, Tsukasa Fukunaga, Yukuto Sato, Mutsumi Nishida. 2013. Evolutionary Origin of the Scombridae (Tunas and Mackerels): Members of a Paleogene Adaptive Radiation with 14 Other Pelagic Fish Families. PLoS ONE 8 (9): e73535.
https://doi.org/10.1371/journal.pone.0073535
Mols, J. B., Gravendeel, B., Chatrou, L. W., Pirie, M. D., Bygrave, P. C., Chase, M. W., & Keßler, P. J. (2004). Identifying clades in Asian Annonaceae: monophyletic genera in the polyphyletic Miliuseae. American Journal of Botany, 91(4), 590-600.
https://doi.org/10.3732/ajb.91.4.590
Moltesen, M., Irestedt, M., Fjeldså, J., Ericson, P. G. P., & Jønsson, K. A. (2012). Molecular phylogeny of Chloropseidae and Irenidae – Cryptic species and biogeography. Molecular Phylogenetics and Evolution, 65(3), 903–914. https://doi.org/10.1016/j.ympev.2012.08.012
https://doi.org/10.1016/j.ympev.2012.08.012
Moncrieff, A. E., Faircloth, B. C., & Brumfield, R. T. (2022). Systematics of Lepidothrix manakins (Aves: Passeriformes: Pipridae) using RADcap markers. Molecular Phylogenetics and Evolution, 173, 107525. https://doi.org/10.1016/j.ympev.2022.107525
https://doi.org/10.1016/j.ympev.2022.107525
Mongiardino Koch, N., Thompson, J. R., Hiley, A. S., McCowin, M. F., Armstrong, A. F., Coppard, S. E., Aguilera, F., Bronstein, O., Kroh, A., Mooi, R., & Rouse, G. W. (2022). Phylogenomic analyses of echinoid diversification prompt a re-evaluation of their fossil record. ELife, 11. CLOCKSS. https://doi.org/10.7554/elife.72460
https://doi.org/10.7554/elife.72460
Monteiro S., Selbach-schnadelbach A., De oliveira R., & Van den berg C. 2010. Molecular phylogenetics of Galeandra (Orchidaceae: Catasetinae) based on plastid and nuclear DNA sequences. Systematic Botany, 35(3): 476-486.
https://doi.org/10.1600/036364410792495944
Montoliu-Nerin, M., Sánchez-García, M., Bergin, C., Kutschera, V. E., Johannesson, H., Bever, J. D., & Rosling, A. (2021). In-depth Phylogenomic Analysis of Arbuscular Mycorrhizal Fungi Based on a Comprehensive Set of de novo Genome Assemblies. Frontiers in Fungal Biology, 2. doi:10.3389/ffunb.2021.716385
https://doi.org/10.3389/ffunb.2021.716385
Moon C., Craven K., Leuchtmann A., Clement S., & Schardl C. 2004. Prevalence of interspecific hybrids amongst asexual fungal endophytes of grasses. Molecular Ecology, 13: 1455-1467.
https://doi.org/10.1111/j.1365-294X.2004.02138.x
Moon C., Scott B., Schardl C., & Christensen M. 2000. The evolutionary origins of Epichloe endophytes from annual ryegrasses. Mycologia, 92(6): 1103-1118.
https://doi.org/10.2307/3761478
Moon, Christina D., Jean-Jacques Guillaumin, Catherine Ravel, Chunjie Li, Kelly D. Craven, and Christopher L. Schardl. "New Neotyphodium endophyte species from the grass tribes Stipeae and Meliceae." Mycologia 99, no. 6 (2007): 895-905
https://doi.org/10.3852/mycologia.97.4.804
Moore, B. R., & Donoghue, M. J. (2007). Correlates of diversification in the plant clade Dipsacales: geographic movement and evolutionary innovations. the american naturalist, 170(S2), S28-S55.
https://doi.org/10.1086/519460
Moore, T. E. [et al. 2010], Verboom, G. A., & Forest, F. 2010. Phylogenetics and biogeography of the parasitic genus Thesium (Santalaceae), with an emphasis on the Cape of South Africa. Bot. J. Linnean Soc. 162: 435-452.
https://doi.org/10.1111/j.1095-8339.2010.01032.x
Moore, William S., Lowell C. Overton, Kathleen J. Miglia. 2011. Mitochondrial DNA based phylogeny of the woodpecker genera Colaptes and Piculus, and implications for the history of woodpecker diversification in South America. Molecular Phylogenetics and Evolution 58 (1): 76-84.
https://doi.org/10.1016/j.ympev.2010.09.011
Moreau C.S., & Bell C. 2013. Testing the museum versus cradle tropical biological diversity hypothesis: Phylogeny, diversification, and ancestral biogeographic range evolution of the ants. Evolution, 67(8): 2240-2257.
https://doi.org/10.1111/evo.12105
Moreau, C., Bell C., Vila R., Archibald S., & Pierce N. 2006. Phylogeny of the ants: diversification in the age of angiosperms. Science 312 (101): 101-104.
https://doi.org/10.1126/science.1124891
Morris, A. B., Bell, C. D., Clayton, J. W., Judd, W. S., Soltis, D. E., & Soltis, P. S. (2007). Phylogeny and divergence time estimation in Illicium with implications for New World biogeography. Systematic botany, 32(2), 236-249.
https://doi.org/10.1600/036364407781179734
Morris, J. L., Puttick, M. N., Clark, J. W., Edwards, D., Kenrick, P., Pressel, S., Wellman, C. H., Yang, Z., Schneider, H., & Donoghue, P. C. J. (2018). The timescale of early land plant evolution. Proceedings of the National Academy of Sciences, 115(10). https://doi.org/10.1073/pnas.1719588115
https://doi.org/10.1073/pnas.1719588115
Mort, M. E., Crawford, D. J., & Fairfield, K. N. (2004). Phylogeny and character evolution in California Coreopsis (Asteraceae): insights from morphology and from sequences of the nuclear and plastid genomes. Systematic botany, 29(3), 781-789.
https://doi.org/10.1600/0363644041744419
Mossebo D.C., Essouman F.E., Machouart M.C., & Gueidan C. 2017. Phylogenetic relationships, taxonomic revision and new taxa of Termitomyces (Basidiomycota, Lyophyllaceae) inferred from combined nLSU- and mtSSU-rDNA sequences. Fungal Diversity, 321(1): 71-102.
https://doi.org/10.11646/phytotaxa.321.1.3
Mota, T. A., De Grave, S., & Carvalho, F. L. (2025). Multigene analysis reveals that Pseudopalaemon Sollaud, 1911 is a junior synonym of the widespread genus Macrobrachium Spence Bate, 1868 (Decapoda: Caridea: Palaemonidae). Journal of Crustacean Biology, 45(3). https://doi.org/10.1093/jcbiol/ruaf048
https://doi.org/10.1093/jcbiol/ruaf048
Motyka, M., Kusy, D., Háva, J., Jahodářová, E., Bílková, R., Vogler, A. P., & Bocak, L. (2021). Mitogenomic data elucidate the phylogeny and evolution of life strategies in Dermestidae (Coleoptera). Systematic Entomology, 47(1), 82–93. Portico. https://doi.org/10.1111/syen.12520
https://doi.org/10.1111/syen.12520
Moyle, R.G., Andersen M.J., Oliveros C., Steinheimer F.D., and Reddy S. 2012. Phylogeny and biogeography of the core babblers (Aves: Timaliidae). Systematic Biology 61 (4): 631-651.
https://doi.org/10.1093/sysbio/sys027
Moyle, Robert G. 2004. Phylogenetics of barbets (Aves: Piciformes) based on nuclear and mitochondrial DNA sequence data. Molecular Phylogenetics and Evolution 30 (1): 187-200.
https://doi.org/10.1016/s1055-7903(03)00179-9
Moyle, Robert G., Carl H. Oliveros, Michael J. Andersen, Peter A. Hosner, Brett W. Benz, Joseph D. Manthey, Scott L. Travers, Rafe M. Brown, Brant C. Faircloth. 2016. Tectonic collision and uplift of Wallacea triggered the global songbird radiation. Nature Communications 7: 12709
https://doi.org/10.1038/ncomms12709
Muellner A., Pennington T., Koecke A., & Renner S.S. 2010. Biogeography of Cedrela (Meliaceae, Sapindales) in Central and South America. American Journal of Botany, 97(3): 511-518.
https://doi.org/10.3732/ajb.0900229
Mullin P., Harris T., & Powers T. 2003. Systematic status of Campydora Cobb, 1920 (Nematoda: Campydorina). Nematology 5 (5): 699-711.
https://doi.org/10.1163/156854103322746878
Mullins P.L., Kawada R., Balhoff J.P., & Deans A. 2012. A revision of Evaniscus (Hymenoptera, Evaniidae) using ontology-based semantic phenotype annotation. ZooKeys 223: 1-38.
https://doi.org/10.3897/zookeys.223.3572
Munoz-ramirez C.P., Bitton P., Doucet S.M., & Knowles L.L. 2016. Mimics here and there, but not everywhere: Müllerian mimicry in Ceroglossus ground beetles?. Biology Letters, 12(9).
https://doi.org/10.1098/rsbl.2016.0429
Musher, L. J., Catanach, T. A., Valqui, T., Brumfield, R. T., Aleixo, A., Johnson, K. P., & Weckstein, J. D. (2024). Whole-genome phylogenomics of the tinamous (Aves: Tinamidae): comparing gene tree estimation error between BUSCOs and UCEs illuminates rapid divergence with introgression. https://doi.org/10.1101/2024.01.22.576737
https://doi.org/10.1101/2024.01.22.576737
Musser, G., & Clarke, J. A. (2024). A new Paleogene fossil and a new dataset for waterfowl (Aves: Anseriformes) clarify phylogeny, ecological evolution, and avian evolution at the K-Pg Boundary. PLOS ONE, 19(7), e0278737. https://doi.org/10.1371/journal.pone.0278737
https://doi.org/10.1371/journal.pone.0278737
Myburg, Henrietta, Marieka Gryzenhout, Brenda D. Wingfield, R. Jay Stipes, and Michael J. Wingfield. "Phylogenetic relationships of Cryphonectria and Endothia species, based on DNA sequence data and morphology." Mycologia 96, no. 5 (2004): 990-1001.
https://doi.org/10.2307/3762083
Márcia Goetze, Katharina Schulte, Clarisse Palma-Silva, Camila M. Zanella, Miriam V. Büttow, Fernanda Capra, Fernanda Bered, 2016, 'Diversification of Bromelioideae (Bromeliaceae) in the Brazilian Atlantic rainforest: A case study in Aechmea subgenus Ortgiesia', Molecular Phylogenetics and Evolution, vol. 98, pp. 346-357
https://doi.org/10.1016/j.ympev.2016.03.001
Mário H. Terra-Araujo, Aparecida D. de Faria, Alberto Vicentini, Stephan Nylinder, Ulf Swenson, 2015, 'Species tree phylogeny and biogeography of the Neotropical genus Pradosia (Sapotaceae, Chrysophylloideae)', Molecular Phylogenetics and Evolution, vol. 87, pp. 1-13
https://doi.org/10.1016/j.ympev.2015.03.007
Müller, K., & Albach, D. C. 2010. Evolutionary rates in Veronica L. (Plantaginaceae): Disentangling the influence of life history and breeding system. J. Mol. Evol. 70: 44-56.
https://doi.org/10.1007/s00239-009-9307-5
Müller, K., & Borsch, T. 2005a. Phylogenetics of Utricularia (Lentibulariaceae) and molecular evolution of the trnK intron in a lineage with high substitution rates. Plant Syst. Evol. 250: 39-67.
https://doi.org/10.1007/s00606-004-0224-1
Müller, K., & Borsch, T. 2005b. Phylogenetics of Amaranthaceae based on matK/trnK sequence data - evidence from parsimony, likelihood, and Bayesian analysis. Ann. Missouri Bot. Gard. 92: 66-102.
http://www.jstor.org/stable/3298649
N. Simon-Blecher, D. Huchon, Y. Achituv, 2007, 'Phylogeny of coral-inhabiting barnacles (Cirripedia; Thoracica; Pyrgomatidae) based on 12S, 16S and 18S rDNA analysis', Molecular Phylogenetics and Evolution, vol. 44, no. 3, pp. 1333-1341
https://doi.org/10.1016/j.ympev.2007.03.026
NATHAN PATRICK LORD, CHRISTOPHER S. HARTLEY, JOHN F. LAWRENCE, JOSEPH V. McHUGH, MICHAEL F. WHITING, KELLY B. MILLER, 2010, 'Phylogenetic analysis of the minute brown scavenger beetles (Coleoptera: Latridiidae), and recognition of a new beetle family, Akalyptoischiidae fam.n. (Coleoptera: Cucujoidea)', Systematic Entomology, vol. 35, no. 4, pp. 753-763
https://doi.org/10.1111/j.1365-3113.2010.00532.x
Nadler, S., and D. Hudspeth. 1998. Ribosomal DNA and phylogeny of the Ascaridoidea (Nemata: Secernentea): implications for morphological evolution and classification. Molecular Phylogenetics and Evolution 10 (2): 221-236.
https://doi.org/10.1006/mpev.1998.0514
Nagalingum N., Schneider H., & Pryer K. 2007. Molecular phylogenetic relationships and morphological evolution in the heterosporous fern genus Marsilea. Systematic Botany,, 32(1), 16-25.
https://doi.org/10.1600/036364407780360256
Nagalingum, N. S., Marshall, C. R., Quental, T. B., Rai, H. S., Little, D. P., & Mathews, S. (2011). Recent synchronous radiation of a living fossil. Science, 334(6057), 796-799.
https://doi.org/10.1126/science.1209926
Nagy, J., & Tökölyi, J. (2014). Phylogeny, Historical Biogeography and the Evolution of Migration in Accipitrid Birds of Prey (Aves: Accipitriformes). Ornis Hungarica, 22(1), 15–35. https://doi.org/10.2478/orhu-2014-0008
https://doi.org/10.2478/orhu-2014-0008
Nagy, J., Végvári, Z., & Varga, Z. (2019). Phylogeny, migration and life history: filling the gaps in the origin and biogeography of the Turdus thrushes. Journal of Ornithology, 160(2), 529–543. https://doi.org/10.1007/s10336-019-01632-3
https://doi.org/10.1007/s10336-019-01632-3
Nash, J. A., Harrington, R. C., Zyskowski, K., Near, T. J., & Prum, R. O. (2024). Species status and phylogenetic relationships of the enigmatic Negros Fruit Dove (Ptilinopus arcanus). Ibis, 166(3), 1023–1040. Portico. https://doi.org/10.1111/ibi.13305
https://doi.org/10.1111/ibi.13305
Nathan K. Lujan, Jonathan W. Armbruster, Nathan R. Lovejoy, Hernán López-Fernández, 2015, 'Multilocus molecular phylogeny of the suckermouth armored catfishes (Siluriformes: Loricariidae) with a focus on subfamily Hypostominae', Molecular Phylogenetics and Evolution, vol. 82, pp. 269-288
https://doi.org/10.1016/j.ympev.2014.08.020
Nauheimer, L., Boyce, P. C., & Renner, S. S. 2012a. Giant taro and its relatives: Aphylogeny of the large genus Alocasia (Araceae) shedslight on Miocene floristic exchange in the Malesian region. Mol. Phyl. Evol. 63: 43-52.
https://doi.org/10.1016/j.ympev.2011.12.011
Nazaire, M., & Hufford, L. 2012. A broad phylogenetic analysis of Boraginaceae: Implications for the relationships of Mertensia. Syst. Bot. 37: 758-783.
https://doi.org/10.1600/036364412x648715
Near, T. J., A. Dornburg, R. I. Eytan, B. P. Keck, W. L. Smith, K. L. Kuhn, J. A. Moore, S. A. Price, F. T. Burbrink, M. Friedman, P. C. Wainwright, 2013, 'Phylogeny and tempo of diversification in the superradiation of spiny-rayed fishes', Proceedings of the National Academy of Sciences, vol. 110, no. 31, pp. 12738-12743
https://doi.org/10.1073/pnas.1304661110
Near, T.J., Bossu C., Bradburd G.S., Carlson R.L., Harrington R.C., Hollingsworth Jr. P.R., Keck B.P., & Etnier D.A. 2011. Phylogeny and temporal diversification of darters (Percidae: Etheostomatinae). Systematic Biology 60 (5): 565595.
https://doi.org/10.1093/sysbio/syr052
Near, Thomas J., Michael Sandel, Kristen L. Kuhn, Peter J. Unmack, Peter C. Wainwright, Wm. Leo Smith. 2012. Nuclear gene-inferred phylogenies resolve the relationships of the enigmatic Pygmy Sunfishes, Elassoma (Teleostei: Percomorpha). Molecular Phylogenetics and Evolution 63 (2): 388-395.
https://doi.org/10.1016/j.ympev.2012.01.011
Neiber M.T., & Hausdorf B. 2015. Molecular phylogeny reveals the polyphyly of the banded snail genus Cepaea (Gastropoda: Helicidae). Molecular Phylogentics and Evolution, 93: 143-149.
https://doi.org/10.1016/j.ympev.2015.07.022
Neiber M.T., & Hausdorf B. 2015. Phylogeography of the land snail genus Circassina Hesse, 1921 (Gastropoda: Hygromiidae) implies multiple Pleistocene refugia in the western Caucasus region. Molecular Phylogentics and Evolution, 93: 129-142.
No link provided! Try
Google Scholar or
CrossRef.org
Neinhuis C., Wanke S., Hilu K., Müller K., & Borsch T. 2005. Phylogeny of Aristolochiaceae based on parsimony, likelihood, and Bayesian analyses of trnL-trnF sequences. Plant Systematics and Evolution, 250: 7-26.
https://doi.org/10.1007/s00606-004-0217-0
Nelsen, M. P., Ree, R. H., & Moreau, C. S. (2018). Ant–plant interactions evolved through increasing interdependence. Proceedings of the National Academy of Sciences, 115(48), 12253–12258. https://doi.org/10.1073/pnas.1719794115
https://doi.org/10.1073/pnas.1719794115
Nelson P. 2012. Parmelina yalungana resurrected and reported from Alaska, China and Russia. The Bryologist,115(4):557-565.
https://doi.org/10.1639/0007-2745-115.4.557
Nepal, M. P., and C. J. Ferguson. 2012. Phylogenetics of Morus (Moraceae) Inferred from ITS and trnL-trnF Sequence Data. Systematic Botany 37(2) 442-450.
https://doi.org/10.1600/036364412x635485
Ness, R. W. [et al. 2011], Graham, S. W., & Barrett, S. C. H. 2011. Reconciling gene and genome duplication events: Using multiple gene families to infer the phylogeny of the aquatic plant family Pontederiaceae. Mol. Biol. Evol. 28: 3009-3018.
https://doi.org/10.1093/molbev/msr119
Newton AF (1997) Review of Agyrtidae (coleoptera), with a New Genus and species from New Zealand. Annales Zoologici, 47(1):111-156.
https://rcin.org.pl/miiz/dlibra/publication/77799/edition/58479/content
Nguembock, Billy, Jon Fjeldså, Corinne Cruaud, Eric Pasquet. 2008. Molecular phylogenetic analysis of all members of the genus Elminia confirms their presence within the Stenostiridae clade. Zoologica Scripta 37 (6): 591-602.
https://doi.org/10.1111/j.1463-6409.2008.00344.x
Nicholas G. Crawford, James F. Parham, Anna B. Sellas, Brant C. Faircloth, Travis C. Glenn, Theodore J. Papenfuss, James B. Henderson, Madison H. Hansen, W. Brian Simison, 2015, 'A phylogenomic analysis of turtles', Molecular Phylogenetics and Evolution, vol. 83, pp. 250-257
https://doi.org/10.1016/j.ympev.2014.10.021
Nicholas W. Persons, Peter A. Hosner, Kelly A. Meiklejohn, Edward L. Braun, Rebecca T. Kimball, 2016, 'Sorting out relationships among the grouse and ptarmigan using intron, mitochondrial, and ultra-conserved element sequences', Molecular Phylogenetics and Evolution, vol. 98, pp. 123-132
https://doi.org/10.1016/j.ympev.2016.02.003
Niclas Engene, Valerie J. Paul, Tara Byrum, William H. Gerwick, Andrea Thor, Mark H. Ellisman, 2013, ' Five chemically rich species of tropical marine cyanobacteria of the genus Okeania gen. nov. (Oscillatoriales, Cyanoprokaryota) ', Journal of Phycology, vol. 49, no. 6, pp. 1095-1106
https://doi.org/10.1111/jpy.12115
Nico M. Franz, 2006, 'Towards a phylogenetic system of derelomine flower weevils (Coleoptera: Curculionidae)', Systematic Entomology, vol. 31, no. 2, pp. 220-287
https://doi.org/10.1111/j.1365-3113.2005.00308.x
Nicolaï, M. P. J., Van Hecke, B., Rogalla, S., Debruyn, G., Bowie, R. C. K., Matzke, N. J., Hackett, S. J., D’Alba, L., & Shawkey, M. D. (2024). The evolution of multiple colour mechanisms is correlated with diversification in sunbirds (Nectariniidae). Systematic Biology. https://doi.org/10.1093/sysbio/syae006
https://doi.org/10.1093/sysbio/syae006
Nie, R., Breeschoten, T., Timmermans, M. J. T. N., Nadein, K., Xue, H., Bai, M., Huang, Y., Yang, X., & Vogler, A. P. (2017). The phylogeny of Galerucinae (Coleoptera: Chrysomelidae) and the performance of mitochondrial genomes in phylogenetic inference compared to nuclear<scp>rRNA</scp>genes. Cladistics, 34(2), 113–130. Portico. https://doi.org/10.1111/cla.12196
https://doi.org/10.1111/cla.12196
Niessen L., Schmidt H., & Vogel R. 2004. The use of tri5 gene sequences for PCR detection and taxonomy of trichothecene-producing species in the Fusarium section Sporotrichiella. International Journal of Food Microbiology, 95(3): 305-319.
https://doi.org/10.1016/j.ijfoodmicro.2003.12.009
Nikolaos Psonis, Katerina Vardinoyannis, Moisis Mylonas, Nikos Poulakakis, 2015, 'Unraveling the evolutionary history of the Chilostoma Fitzinger, 1833 (Mollusca, Gastropoda, Pulmonata) lineages in Greece', Molecular Phylogenetics and Evolution, vol. 91, pp. 210-225
https://doi.org/10.1016/j.ympev.2015.05.019
Nils Knie, Simon Fischer, Felix Grewe, Monika Polsakiewicz, Volker Knoop, 2015, 'Horsetails are the sister group to all other monilophytes and Marattiales are sister to leptosporangiate ferns', Molecular Phylogenetics and Evolution, vol. 90, pp. 140-149
https://doi.org/10.1016/j.ympev.2015.05.008
Nilsson R., & Hallenberg N. 2003. Phylogeny of the Hypochnicium punctulatum complex as inferred from ITS sequence data. Mycologia, 95(1): 54-60.
https://doi.org/10.2307/3761961
Nilsson, Maria A., Ulfur Arnason, Peter B.S. Spencer, Axel Janke. 2004. Marsupial relationships and a timeline for marsupial radiation in South Gondwana. Gene 340 (2): 189-196.
https://doi.org/10.1016/j.gene.2004.07.040
Njabo, Kevin Y, Michael D Sorenson. 2009. Origin of Bannerman's Turaco Tauraco bannermani in relation to historical climate change and the distribution of West African montane forests. Ostrich 80 (1): 1-7.
https://doi.org/10.2989/ostrich.2009.80.1.1.759
Nogueira, J. M. de M., Fitzhugh, K., & Hutchings, P. (2013). The continuing challenge of phylogenetic relationships in Terebelliformia (Annelida : Polychaeta). Invertebrate Systematics, 27(2), 186. doi:10.1071/is12062
https://doi.org/10.1071/is12062
Nonaka K., Kaifuchi S., Omura S., & Masuma R. 2013. Five new Simplicillium species (Cordycipitaceae) from soils in Tokyo, Japan. Mycoscience, 54(1): 42-53.
https://doi.org/10.1016/j.myc.2012.07.002
Noor D. White, Charles Mitter, Michael J. Braun, 2017, 'Ultraconserved elements resolve the phylogeny of potoos (Aves: Nyctibiidae)', Journal of Avian Biology, vol. 48, no. 6, pp. 872-880
https://doi.org/10.1111/jav.01313
Nováková, N., & Robovský, J. (2021). Behaviour of cranes (family Gruidae) mirrors their phylogenetic relationships. Avian Research, 12(1). https://doi.org/10.1186/s40657-021-00275-4
https://doi.org/10.1186/s40657-021-00275-4
Nowak, M. D. [et al. 2012], Davis, A. P., & Yoder, A. D. 2012. Sequence data from new plastid and nuclear COSII regions resolves early diverging lineages in Coffea (Rubiaceae). Syst. Bot. 37: 995-1005.
https://doi.org/10.1600/036364412x656482
Nudelman M., Rossi M., Conforti V., & Triemer R. 2003. Phylogeny of Euglenophyceae based on SSU rDNA sequences: taxonomic implications. Journal of Phycology, 39(1): 226-235.
https://doi.org/10.1046/j.1529-8817.2003.02075.x
Nunn, Gary B., Scott E. Stanley. 1998. Body size effects and rates of cytochrome b evolution in tube-nosed seabirds. Molecular Biology and Evolution 15 (10): 1360-1371.
https://doi.org/10.1093/oxfordjournals.molbev.a025864
Nyakatura, Katrin, Olaf RP Bininda-Emonds. 2012. Updating the evolutionary history of Carnivora (Mammalia): a new species-level supertree complete with divergence time estimates. BMC Biology 10 (1): 12
https://doi.org/10.1186/1741-7007-10-12
Nylander, Johan A. A., Urban Olsson, Per Alström, Isabel Sanmartín. 2008. Accounting for phylogenetic uncertainty in biogeography: a Bayesian approach to dispersal-vicariance analysis of the thrushes (Aves: Turdus). Systematic Biology 57 (2): 257-268.
https://doi.org/10.1080/10635150802044003
Nyári, Árpád S., Brett W. Benz, Knud A. Jønsson, Jon Fjeldså, Robert G. Moyle. 2009. Phylogenetic relationships of fantails (Aves: Rhipiduridae). Zoologica Scripta 38 (6): 553-561.
https://doi.org/10.1111/j.1463-6409.2009.00397.x
Nürk N.M., Scheriau C., & Madriñán S. 2013. Explosive radiation in páramo Hypericum rates of diversification among New World lineages. Frontiers in Genetics Evolutionary and Population Genetics. Special volume: Effects of mountain formation and uplift on biological diversity, 4(175).
https://doi.org/10.3389/fgene.2013.00175
O'Leary, M. A., J. I. Bloch, J. J. Flynn, T. J. Gaudin, A. Giallombardo, N. P. Giannini, S. L. Goldberg, B. P. Kraatz, Z.-X. Luo, J. Meng, X. Ni, M. J. Novacek, F. A. Perini, Z. S. Randall, G. W. Rougier, E. J. Sargis, M. T. Silcox, N. B. Simmons, M. Spaulding, P. M. Velazco, M. Weksler, J. R. Wible, A. L. Cirranello. 2013. The placental mammal ancestor and the post-K-Pg radiation of placentals. Science 339 (6120): 662-667.
https://doi.org/10.1126/science.1229237
O'donnell K. 2000. Molecular phylogeny of the Nectria haematococca-Fusarium solani species complex. Mycologia, 92(5): 919-938.
https://doi.org/10.2307/3761588
O'donnell K., Humber R., Geiser D., Kang S., Park B., Robert V., Crous P., Johnston P., Aoki T., Rehner S.A., & Rooney A. 2011. Phylogenetic diversity of insecticolous fusaria inferred from multilocus DNA sequence data and their molecular identification via the Internet at FUSARIUM-ID and Fusarium MLST. Mycologia, 104(2): 427-445.
https://doi.org/10.3852/11-179
O. Mokady, Y. Loya, Y. Achituv, E. Geffen, D. Graur, S. Rozenblatt, I. Brickner, 1999, 'Speciation Versus Phenotypic Plasticity in Coral Inhabiting Barnacles: Darwin's Observations in an Ecological Context', Journal of Molecular Evolution, vol. 49, no. 3, pp. 367-375
https://doi.org/10.1007/pl00006560
Oatley, Graeme, Robert E. Simmons, Jérôme Fuchs. 2015. A molecular phylogeny of the harriers (Circus, Accipitridae) indicate the role of long distance dispersal and migration in diversification. Molecular Phylogenetics and Evolution 85:150-160.
https://doi.org/10.1016/j.ympev.2015.01.013
Oberlander, K. C., Dreyer, L. L., & Bellstedt, D. U. (2011). Molecular phylogenetics and origins of southern African Oxalis. Taxon, 60(6), 1667-1677.
No link provided! Try
Google Scholar or
CrossRef.org
Oberski, J. T. (2024). <scp>Ultraconserved element (UCE)</scp> phylogenomics illuminates the evolutionary history and biogeography of Dorymyrmex pyramid ants. Systematic Entomology, 50(2), 325–348. Portico. https://doi.org/10.1111/syen.12658
https://doi.org/10.1111/syen.12658
Odeen, A., Hastad O., & Alstrom P. 2011. Evolution of ultraviolet vision in the largest avian radiation - the passerines. BMC Evolutionary Biology 11 (313): 1-8.
https://doi.org/10.1186/1471-2148-11-313
Ogawa, Lisa M., Paulo C. Pulgarin, Donald A. Vance, Jon Fjeldså, Marcel van Tuinen. 2015. Opposing demographic histories reveal rapid evolution in grebes (Aves: Podicipedidae). The Auk 132 (4): 771-786
https://doi.org/10.1642/auk-14-259.1
Ohlson, Jan I., Jon Fjeldså, Per G.P. Ericson. 2013. Molecular phylogeny of the manakins (Aves: Passeriformes: Pipridae), with a new classification and the description of a new genus. Molecular Phylogenetics and Evolution 69 (3): 796-804.
https://doi.org/10.1016/j.ympev.2013.06.024
Okane I., & Ono Y. 2017. Phylogenetic study of indigenous grapevine leaf rust fungi in North America and biological identity of an invasive grapevine leaf rust fungus in Brazil. Mycoscience, .
https://doi.org/10.1016/j.myc.2017.07.005
Oliveira, D. C. S. G., Almeida, F. C., O’Grady, P. M., Armella, M. A., DeSalle, R., & Etges, W. J. (2012). Monophyly, divergence times, and evolution of host plant use inferred from a revised phylogeny of the Drosophila repleta species group. Molecular Phylogenetics and Evolution, 64(3), 533–544. https://doi.org/10.1016/j.ympev.2012.05.012
https://doi.org/10.1016/j.ympev.2012.05.012
Oliveira, L. A. de, Inez, T. G., Ferreira, W. D., & Hermes, M. G. (2019). A phylogenetic investigation of the Neotropical genus Alphamenes van der Vecht, 1977 (Hymenoptera, Vespidae, Eumeninae). Revista Brasileira de Entomologia, 63(1), 73–79. https://doi.org/10.1016/j.rbe.2018.11.006
https://doi.org/10.1016/j.rbe.2018.11.006
Oliver, P. M., Heiniger, H., Hugall, A. F., Joseph, L., & Mitchell, K. J. (2020). Oligocene divergence of frogmouth birds (Podargidae) across Wallace’s Line. Biology Letters, 16(5), 20200040. https://doi.org/10.1098/rsbl.2020.0040
https://doi.org/10.1098/rsbl.2020.0040
Oliveros, C. H., Andersen, M. J., & Moyle, R. G. (2021). A phylogeny of white-eyes based on ultraconserved elements. Molecular Phylogenetics and Evolution, 164, 107273. https://doi.org/10.1016/j.ympev.2021.107273
https://doi.org/10.1016/j.ympev.2021.107273
Oliveros, C. H., Field, D. J., Ksepka, D. T., Barker, F. K., Aleixo, A., Andersen, M. J., … Faircloth, B. C. (2019). Earth history and the passerine superradiation. Proceedings of the National Academy of Sciences, 116(16), 7916–7925. doi:10.1073/pnas.1813206116
https://doi.org/10.1073/pnas.1813206116
Olmstead R., Bohs L., Abdel-migid H., Santiago-velentín E., Garcia V., & Collier S. 2008. A molecular phylogeny of the Solanaceae. Taxon, 57(4): 1159-1181.
http://www.ingentaconnect.com/content/iapt/tax/2008/00000057/00000004/art00010
Olmstead, Richard G., Michelle L. Zjhra, Lucia G. Lohmann, Susan O. Grose, and Andrew J. Eckert. 2009. A molecular phylogeny and classification of Bignoniaceae. Am. J. Bot. 96, no. 9 (September 1): 1731-1743. doi:10.3732/ajb.0900004.
https://doi.org/10.3732/ajb.0900004
Olsson, U., & Alström, P. (2020). A comprehensive phylogeny and taxonomic evaluation of the waxbills (Aves: Estrildidae). Molecular Phylogenetics and Evolution, 146, 106757. https://doi.org/10.1016/j.ympev.2020.106757
https://doi.org/10.1016/j.ympev.2020.106757
Olsson, U., Irestedt, M., Sangster, G., Ericson, P. G. P., & Alström, P. (2013). Systematic revision of the avian family Cisticolidae based on a multi-locus phylogeny of all genera. Molecular Phylogenetics and Evolution, 66(3), 790–799. https://doi.org/10.1016/j.ympev.2012.11.004
https://doi.org/10.1016/j.ympev.2012.11.004
Omar Torres-Carvajal, Simón E. Lobos, Pablo J. Venegas, 2015, 'Phylogeny of Neotropical Cercosaura (Squamata: Gymnophthalmidae) lizards', Molecular Phylogenetics and Evolution, vol. 93, pp. 281-288
https://doi.org/10.1016/j.ympev.2015.07.025
Orihara T., Ohmae M., & Yamamoto K. 2016. First report of Chamonixia caespitosa (Boletaceae, Boletales) from Japan and its phylogeographic significance. Mycoscience, 57(1): 58-63.
https://doi.org/10.1016/j.myc.2015.08.005
Ornelas, J. F., C. Gonzalez, and A. Espinosa De Los Monteros. 2009. Uncorrelated evolution between vocal and plumage coloration traits in the trogons: a comparative study. Journal of Evolutionary Biology 22 (3): 471-484.
https://doi.org/10.1111/j.1420-9101.2008.01679.x
Orr, M. C., Branstetter, M. G., Straka, J., Yuan, F., Leijs, R., Zhang, D., Zhou, Q., & Zhu, C.-D. (2022). Phylogenomic Interrogation Revives an Overlooked Hypothesis for the Early Evolution of the Bee Family Apidae (Hymenoptera: Apoidea), With a Focus on the Subfamily Anthophorinae. Insect Systematics and Diversity, 6(4). https://doi.org/10.1093/isd/ixac022
https://doi.org/10.1093/isd/ixac022
Orr, R. J. S., Di Martino, E., Ramsfjell, M. H., Gordon, D. P., Berning, B., Chowdhury, I., Craig, S., Cumming, R. L., Figuerola, B., Florence, W., Harmelin, J.-G., Hirose, M., Huang, D., Jain, S. S., Jenkins, H. L., Kotenko, O. N., Kuklinski, P., Lee, H. E., Madurell, T., … Liow, L. H. (2022). Paleozoic origins of cheilostome bryozoans and their parental care inferred by a new genome-skimmed phylogeny. Science Advances, 8(13). https://doi.org/10.1126/sciadv.abm7452
https://doi.org/10.1126/sciadv.abm7452
Ortiz, D., Pekár, S., Henrard, A., Jocqué, R., Harvey, M. S., Haddad, C., & Van Bocxlaer, B. (2025). Phylogenomics unveils Afrotropical origin, trans‐oceanic global diversification and climatic niche conservatism in the sedentary Zodariidae ant spiders. Systematic Entomology, 50(4), 988–1004. Portico. https://doi.org/10.1111/syen.12694
https://doi.org/10.1111/syen.12694
Ostrow, E. N., Catanach, T. A., Bates, J. M., Aleixo, A., & Weckstein, J. D. (2023). Phylogenomic analysis confirms the relationships among toucans, toucan-barbets, and New World barbets but reveals paraphyly ofSelenideratoucanets and evidence for mitonuclear discordance. Ornithology, 140(3). https://doi.org/10.1093/ornithology/ukad022
https://doi.org/10.1093/ornithology/ukad022
Oswald, J. A., Boyd, B. M., Szewczak, A. R., LeFebvre, M. J., Stucky, B. J., Guralnick, R. P., Johnson, K. P., Allen, J. M., & Steadman, D. W. (2025). Genomic data reveal that the Cuban blue-headed quail-dove (
Starnoenas cyanocephala
) is a biogeographic relict. Biology Letters, 21(1). https://doi.org/10.1098/rsbl.2024.0464
https://doi.org/10.1098/rsbl.2024.0464
Ottenburghs, Jente, Hendrik-Jan Megens, Robert H.S. Kraus, Ole Madsen, Pim van Hooft, Sipke E. van Wieren, Richard P.M.A. Crooijmans, Ronald C. Ydenberg, Martien A.M. Groenen, Herbert H.T. Prins. 2016. A Tree of Geese: A Phylogenomic Perspective on the Evolutionary History of True Geese. Molecular Phylogenetics and Evolution 101: 303-313.
https://doi.org/10.1016/j.ympev.2016.05.021
Outomuro, D., Adams, D. C., & Johansson, F. (2013). Wing shape allometry and aerodynamics in calopterygid damselflies: a comparative approach. BMC Evolutionary Biology, 13(1), 118. https://doi.org/10.1186/1471-2148-13-118
https://doi.org/10.1186/1471-2148-13-118
Overton, Lowell C, Douglas D Rhoads. 2004. Molecular phylogenetic relationships based on mitochondrial and nuclear gene sequences for the Todies (Todus, Todidae) of the Caribbean. Molecular Phylogenetics and Evolution 32 (2): 524-538.
https://doi.org/10.1016/j.ympev.2004.01.004
P. Chaverri, G. J. Samuels, K. T. Hodge, 2005, 'The genus Podocrella and its nematode-killing anamorph Harposporium', Mycologia, vol. 97, no. 2, pp. 433-443.
https://doi.org/10.3852/mycologia.97.2.433
P. F. COWMAN, D. R. BELLWOOD, 2011, 'Coral reefs as drivers of cladogenesis: expanding coral reefs, cryptic extinction events, and the development of biodiversity hotspots', Journal of Evolutionary Biology, vol. 24, no. 12, pp. 2543-2562
https://doi.org/10.1111/j.1420-9101.2011.02391.x
P. Korall, P. Kenrick. 2002. Phylogenetic relationships in Selaginellaceae based on RBCL sequences. American Journal of Botany 89(3):506-517.
https://doi.org/10.3732/ajb.89.3.506
P. Romon, Z. W. de Beer, X. Zhou, T. A. Duong, B. D. Wingfield, M. J. Wingfield, 2014, 'Multigene phylogenies of Ophiostomataceae associated with Monterey pine bark beetles in Spain reveal three new fungal species', Mycologia, vol. 106, no. 1, pp. 119-132
https://doi.org/10.3852/13-073
P. Sandoval-Leiva, C. C. Carmaran, D. Park, A. I. Romero, P. R. Johnston, 2014, 'Vibrisseaceous fungi from the southern hemisphere, including Chlorovibrissea chilensis (Helotiales, incertaesedis) sp. nov.', Mycologia, vol. 106, no. 6, pp. 1159-1167
https://doi.org/10.3852/14-009
P. W. Crous, M. J. Wingfield, J. Guarro, R. Cheewangkoon, M. van der Bank, W. J. Swart, A. M. Stchigel, J. F. Cano-Lira, J. Roux, H. Madrid, U. Damm, A. R. Wood, L. A. Shuttleworth, C. S. Hodges, M. Munster, M. de Jesús Yáñez-Morales, L. Zúñiga-Estrada, E. M. Cruywagen, G. S. De Hoog, C. Silvera, J. Najafzadeh, E. M. Davison, P. J. N. Davison, M. D. Barrett, R. L. Barrett, D. S. Manamgoda, A. M. Minnis, N. M. Kleczewski, S. L. Flory, L. A. Castlebury, K. Clay, K. D. Hyde, S. N. D. Maússe-Sitoe, Shuaifei Chen, C. Lechat, M. Hairaud, L. Lesage-Meessen, J. Pawłowska, M. Wilk, A. Śliwińska-Wyrzychowska, M. Mętrak, M. Wrzosek, D. Pavlic-Zupanc, H. M. Maleme, B. Slippers, W. P. Mac Cormack, D. I. Archuby, N. J. Grünwald, M. T. Tellería, M. Dueñas, M. P. Martín, S. Marincowitz, Z. W. de Beer, C. A. Perez, J. Gené, Y. Marin-Felix, J. Z. Groenewald, 2013, 'Fungal Planet description sheets: 154–213', Persoonia - Molecular Phylogeny and Evolution of Fungi, vol. 31, no. 1, pp. 188-296
https://doi.org/10.3767/003158513x675925
P.W. Crous, J.Z. Groenewald, 2011, 'Why everlastings don't last', Persoonia - Molecular Phylogeny and Evolution of Fungi, vol. 26, no. 1, pp. 70-84
https://doi.org/10.3767/003158511X574532
PACKER, L. (2007). Phylogeny and classification of the Xeromelissinae (Hymenoptera: Apoidea, Colletidae) with special emphasis on the genus Chilicola. Systematic Entomology, 33(1), 72–96. Portico. https://doi.org/10.1111/j.1365-3113.2007.00398.x
https://doi.org/10.1111/j.1365-3113.2007.00398.x
PALADINI, A., TAKIYA, D. M., CAVICHIOLI, R. R., & CARVALHO, G. S. (2014). Phylogeny and biogeography of <scp>N</scp>eotropical spittlebugs (<scp>H</scp>emiptera: <scp>C</scp>ercopidae: <scp>I</scp>schnorhininae): revised tribal classification based on morphological data. Systematic Entomology, 40(1), 82–108. Portico. https://doi.org/10.1111/syen.12091
https://doi.org/10.1111/syen.12091
PARKER, J. (2016). Emergence of a superradiation: pselaphine rove beetles in mid‐Cretaceous amber from Myanmar and their evolutionary implications. Systematic Entomology, 41(3), 541–566. Portico. https://doi.org/10.1111/syen.12173
https://doi.org/10.1111/syen.12173
PENZ, C. M., DEVRIES, P. J., & WAHLBERG, N. (2012). Diversification of Morpho butterflies (Lepidoptera, Nymphalidae): a re‐evaluation of morphological characters and new insight from DNA sequence data. Systematic Entomology, 37(4), 670–685. Portico. https://doi.org/10.1111/j.1365-3113.2012.00636.x
https://doi.org/10.1111/j.1365-3113.2012.00636.x
PEREYRA, V., & MOUND, L. A. (2009). Phylogenetic relationships within the genus Cranothrips (Thysanoptera, Melanthripidae) with consideration of host associations and disjunct distributions within the family. Systematic Entomology, 34(1), 151–161. Portico. https://doi.org/10.1111/j.1365-3113.2008.00445.x
https://doi.org/10.1111/j.1365-3113.2008.00445.x
PISTONE, D., GOHLI, J., & JORDAL, B. H. (2017). Molecular phylogeny of bark and ambrosia beetles (Curculionidae: Scolytinae) based on 18 molecular markers. Systematic Entomology, 43(2), 387–406. Portico. https://doi.org/10.1111/syen.12281
https://doi.org/10.1111/syen.12281
PITZALIS, M., & BOLOGNA, M. A. (2010). Time of diversification in the Cape fauna endemisms, inferred by phylogenetic studies of the genusIselma(Coleoptera: Meloidae: Eleticinae). Systematic Entomology, 35(4), 739–752. Portico. https://doi.org/10.1111/j.1365-3113.2010.00530.x
https://doi.org/10.1111/j.1365-3113.2010.00530.x
PIWCZYŃSKI, M., SZPILA, K., GRZYWACZ, A., & PAPE, T. (2014). A large‐scale molecular phylogeny of flesh flies (<scp>D</scp>iptera: <scp>S</scp>arcophagidae). Systematic Entomology, 39(4), 783–799. Portico. https://doi.org/10.1111/syen.12086
https://doi.org/10.1111/syen.12086
POHL, H., & BEUTEL, R. G. (2016). †<scp>K</scp>inzelbachilla ellenbergeri – a new ancestral species, genus and family of <scp>S</scp>trepsiptera (<scp>I</scp>nsecta). Systematic Entomology, 41(1), 287–297. Portico. https://doi.org/10.1111/syen.12158
https://doi.org/10.1111/syen.12158
PONCE, F. V., BREINHOLT, J. W., HOSSIE, T., BARBER, J. R., JANZEN, D. H., HALLWACHS, W., & KAWAHARA, A. Y. (2014). A molecular phylogeny of Eumorpha (<scp>L</scp>epidoptera: <scp>S</scp>phingidae) and the evolution of anti‐predator larval eyespots. Systematic Entomology, 40(2), 401–408. Portico. https://doi.org/10.1111/syen.12111
https://doi.org/10.1111/syen.12111
PRADO, A., MCKENNA, D. D., & WINDSOR, D. (2012). Molecular evidence of cycad seed predation by immature Aulacoscelidinae (Coleoptera: Orsodacnidae). Systematic Entomology, 37(4), 747–757. Portico. https://doi.org/10.1111/j.1365-3113.2012.00639.x
https://doi.org/10.1111/j.1365-3113.2012.00639.x
PRICE, D. L. (2009). Phylogeny and biogeography of the dung beetle genus Phanaeus (Coleoptera: Scarabaeidae). Systematic Entomology, 34(1), 137–150. Portico. https://doi.org/10.1111/j.1365-3113.2008.00443.x
https://doi.org/10.1111/j.1365-3113.2008.00443.x
Paganucci de queiroz L., & Lavin M. 2011. Coursetia (Leguminosae) From Eastern Brazil: Nuclear Ribosomal and Chloroplast DNA Sequence Analysis reveal the Monophyly of Three Caatinga-inhabiting Species. Systematic Botany, 36(1): 69-79
https://doi.org/10.1600/036364411X553144
Parchman, Thomas L., Craig W. Benkman, Eduardo T. Mezquida. 2007. Coevolution between Hispaniolan crossbills and pine: does more time allow for greater phenotypic escalation at lower latitude? Evolution 61 (9): 2142-2153
https://doi.org/10.1111/j.1558-5646.2007.00172.x
Parfrey, L. W., D. J. G. Lahr, A. H. Knoll, L. A. Katz. 2011. Estimating the timing of early eukaryotic diversification with multigene molecular clocks. Proceedings of the National Academy of Sciences 108 (33): 13624-13629.
https://doi.org/10.1073/pnas.1110633108
Park M., Culler C., & Pryor B. 2007. A re-examination of the phylogenetic relationship between the causal agents of carrot black rot, Alternaria radicina and A. carotiincultae. Mycologia, 100(3): 511-527.
https://doi.org/10.3852/07-186R1
Park, J. M., Kovačic, S., Liber, Z., Eddie, W. M., & Schneeweiss, G. M. (2006). Phylogeny and biogeography of isophyllous species of Campanula (Campanulaceae) in the Mediterranean area. Systematic Botany, 31(4), 862-880.
https://doi.org/10.1600/036364406779695924
Park, J., Kim, M. J., & Kim, I. (2019). Complete mitochondrial genome of the leaf-rolling-weevil, Apoderus jekelii Roelofs, 1874 (Coleoptera: Attelabidae). Mitochondrial DNA Part B, 4(1), 995–997. https://doi.org/10.1080/23802359.2019.1580161
https://doi.org/10.1080/23802359.2019.1580161
Pascual B., El-azaz J., De la torre F., Canas R.A., Avila C., & Canovas F.M. 2016. Biosynthesis and metabolic fate of phenylalanine in conifers. Frontiers in Plant Science, 7: 1030.
https://doi.org/10.3389/fpls.2016.01030
Pasquet, Eric, F. Keith Barker, Jochen Martens, Annie Tillier, Corinne Cruaud, Alice Cibois. 2014. Evolution within the nuthatches (Sittidae: Aves, Passeriformes): molecular phylogeny, biogeography, and ecological perspectives. Journal of Ornithology 155 (3):755-765.
https://doi.org/10.1007/s10336-014-1063-7
Pasquet, Eric. 2008. Phylogeny of the nuthatches of the Sitta canadensis group and its evolutionary and biogeographic implications. Ibis 140 (1): 150-156
https://doi.org/10.1111/j.1474-919x.1998.tb04553.x
Patané, José S.L., Jason D. Weckstein, Alexandre Aleixo, John M. Bates. 2009. Evolutionary history of Ramphastos toucans: molecular phylogenetics, temporal diversification, and biogeography. Molecular Phylogenetics and Evolution 53 (3): 923-934.
https://doi.org/10.1016/j.ympev.2009.08.017
Patel, Swati, Jason D. Weckstein, José S.L. Patané, John M. Bates, Alexandre Aleixo. 2011. Temporal and spatial diversification of Pteroglossus araçaris (Aves: Ramphastidae) in the neotropics: constant rate of diversification does not support an increase in radiation during the Pleistocene. Molecular Phylogenetics and Evolution 58 (1): 105-115.
https://doi.org/10.1016/j.ympev.2010.10.016
Patoka, J., Bláha, M., & Kouba, A. (2015). Cherax( Cherax) subterigneus, a new crayfish (Decapoda: Parastacidae) from West Papua, Indonesia. Journal of Crustacean Biology, 35(6), 830–838. https://doi.org/10.1163/1937240x-00002377
https://doi.org/10.1163/1937240x-00002377
Patterson, S.A., J.A. Morris-Pocock, V.L. Friesen. 2011. A multilocus phylogeny of the Sulidae (Aves: Pelecaniformes). Molecular Phylogenetics and Evolution 58 (2): 181-191.
https://doi.org/10.1016/j.ympev.2010.11.021
Paul A. Covey, Brett Kuwitzky, Mia Hanson, Kimberly Webb, 2014, 'Multilocus analysis using putative fungal effectors to describe a population of Fusarium oxysporum from sugar beet', Phytopathology, p. 140206091749008
https://doi.org/10.1094/phyto-09-13-0248-r
Paul Masonick, Amy Michael, Sarah Frankenberg, Wolfgang Rabitsch, Christiane Weirauch, 2017, 'Molecular phylogenetics and biogeography of the ambush bugs (Hemiptera: Reduviidae: Phymatinae)', Molecular Phylogenetics and Evolution, vol. 114, pp. 225-233
https://doi.org/10.1016/j.ympev.2017.06.010
Pavlic D., Slippers B., Coutinho T., & Wingfield M.J. 2009. Molecular and phenotypic characterization of three phylogenetic species discovered within the Neofusicoccum parvum/N. ribis complex. Mycologia, 101(5): 636-647.
https://doi.org/10.3852/08-193
Paxinos, E. E. , H. F. James, S. L. Olson, M. D. Sorenson, J. Jackson, R. C. Fleischer. 2002. mtDNA from fossils reveals a radiation of Hawaiian geese recently derived from the Canada goose (Branta canadensis). Proceedings of the National Academy of Sciences 99 (3): 1399-1404
https://doi.org/10.1073/pnas.032166399
Payne, Robert B. The cuckoos. Vol. 15. Oxford University Press, 2005.
ISBN-13: 978-0198502135 ISBN-10: 0198502133
http://ukcatalogue.oup.com/product/9780198502135.do
Pazoutova S. 2001. The phylogeny and evolution of the genus Claviceps. Mycological Research, 105(3): 275-283.
https://doi.org/10.1017/S0953756201003562
Pedraza-Lara, C., Gutiérrez-Yurrita, P. J., & Jesus-Bonilla, V. S. D. (2021). A new species of Procambarus (Decapoda, Cambaridae) from the State of Querétaro, Mexico. ZooKeys, 1048, 1–21. https://doi.org/10.3897/zookeys.1048.57493
https://doi.org/10.3897/zookeys.1048.57493
Peever T., Su G., Carpenter-boggs L., & Timmer L. 2003. Molecular systematics of citrus-associated Alternaria species. Mycologia, 96(1): 119-134.
https://doi.org/10.2307/3761993
Peintner U., Ladurner H., and Simonini G. 2003. Xerocomus cisalpinus sp. nov. and the delimitation of species in the Xerocomus chrysenteron complex based on morphology and rDNA-LSU sequences. Mycological Research 107 (6): 659-679.
https://doi.org/10.1017/S0953756203007901
Peintner U., Moser M., Agretious thomas K., & Manimohan P. 2003. First records of ectomycorrhizal Cortinarius species (Agaricales, Basidiomycetes) from tropical India and their phylogenetic position based on rDNA ITS sequences. Mycological Research, 107(4): 485-494.
https://doi.org/10.1017/S0953756203007585
Pellegrini M.O., Hunt D.R., Forzza R.C., & Sakuragui C.M. 2017. Morphological phylogeny of Tradescantia L. (Commelinaceae) sheds light on a new infrageneric classification and taxonomic novelties in subtribe Tradescantiinae. Phytokeys, .
https://dx.doi.org/10.3897%2Fphytokeys.89.20388
Per Alström, Frank E. Rheindt, Ruiying Zhang, Min Zhao, Jing Wang, Xiaojia Zhu, Chyi Yin Gwee, Yan Hao, Jan Ohlson, Chenxi Jia, Dewi M. Prawiradilaga, Per G.P. Ericson, Fumin Lei, Urban Olsson, 2018, 'Complete species-level phylogeny of the leaf warbler (Aves: Phylloscopidae) radiation', Molecular Phylogenetics and Evolution, vol. 126, pp. 141-152
https://doi.org/10.1016/j.ympev.2018.03.031
Percy D., & Cronk Q. 2002. Different fates of island brooms: contrasting evolution in Adenocarpus, Genista and Teline (Genisteae, Leguminosae) in the Canary Islands and Madeira. American Journal of Botany, 89: 854-864.
https://doi.org/10.3732/ajb.89.5.854
Percy D., Cronk Q., & Page R. 2004. Plant-insect interactions: double-dating associated insect and plant lineages reveals asynchronous radiations. Systematic Biology, 53(1): 120-127.
https://doi.org/10.1080/10635150490264996
Pereira, S., Johnson K., Clayton D., and Baker A. 2007. Mitochondrial and nuclear DNA sequences support a Cretaceous origin of Columbiformes and a dispersal-driven radiation in the Paleogene. Systematic Biology 56 (4): 656-672.
https://doi.org/10.1080/10635150701549672
Pereira, Sergio L., Allan J. Baker, Anita Wajntal. 2002. Combined nuclear and mitochondrial DNA sequences resolve generic relationships within the Cracidae (Galliformes, Aves). Systematic Biology 51 (6): 946-958.
https://doi.org/10.1080/10635150290102519
Pereira, Sergio L., Allan J. Baker. 2008. DNA evidence for a Paleocene origin of the Alcidae (Aves: Charadriiformes) in the Pacific and multiple dispersals across northern oceans. Molecular Phylogenetics and Evolution 46 (2): 430-445.
https://doi.org/10.1016/j.ympev.2007.11.020
Pereira, Sérgio Luiz, Allan J. Baker. 2004. Vicariant speciation of curassows (Aves, Cracidae): a hypothesis based on mitochondrial DNA phylogeny. The Auk 121 (3): 682-694.
https://doi.org/10.1642/0004-8038(2004)121[0682:vsocac]2.0.co;2
Perelman, P., Johnson W.E., Roos C., Seuánez H.N., Horvath J.E., Moreira M.A., Kessing B.D., Pontius J., Roelke M., Rumpler Y., Schneider M.C., Silva A., O'brien S., & Pecon-slattery J. 2011. A Molecular Phylogeny of Living Primates. PLoS Genetics 7(3): e1001342.
https://doi.org/10.1371/journal.pgen.1001342
Peris, D. (2016). Early Cretaceous origin of pollen‐feeding beetles (Insecta: Coleoptera: Oedemeridae). Cladistics, 33(3), 268–278. Portico. https://doi.org/10.1111/cla.12168
https://doi.org/10.1111/cla.12168
Perrie L., Wilson R., Shepherd L., Ohlsen D., Batty E., Brownsey P., & Bayly M.J. 2014. Molecular phylogenetics and generic taxonomy of the Blechnaceae ferns. Taxon, 63(4): 745-758.
https://doi.org/10.12705/634.13
Peter A. Hosner, Edward L. Braun, Rebecca T. Kimball, 2015, 'Land connectivity changes and global cooling shaped the colonization history and diversification of New World quail (Aves: Galliformes: Odontophoridae)', Journal of Biogeography, vol. 42, no. 10, pp. 1883-1895
https://doi.org/10.1111/jbi.12555
Peter Rask Møller, Steen Wilhelm Knudsen, Werner Schwarzhans, Jørgen G. Nielsen, 2016, 'A new classification of viviparous brotulas (Bythitidae) – with family status for Dinematichthyidae – based on molecular, morphological and fossil data', Molecular Phylogenetics and Evolution, vol. 100, pp. 391-408
https://doi.org/10.1016/j.ympev.2016.04.008
Peter Vďačný, Ľubomír Rajter, Shahed Uddin Ahmed Shazib, Seok Won Jang, Mann Kyoon Shin, 2017, 'Diversification dynamics of rhynchostomatian ciliates: the impact of seven intrinsic traits on speciation and extinction in a microbial group', Scientific Reports, vol. 7, no. 1
https://doi.org/10.1038/s41598-017-09472-y
Petersen, G., Seberg, O., Jørgensen, T., & Mathew, B. 2008. A phylogeny of the genus Crocus (Iridaceae) based on sequence data from five plastid regions. Taxon 57: 487-499.
http://www.jstor.org/stable/25066017
Petersen, G., Seberg, O., Yde, M., & Berthelsen, K. 2006. Phylogenetic relationships of Triticum and Aegilops and evidence for the origin of the A, B, and D genomes of common wheat (Triticum aestivum). Mol. Phyl. Evol. 39: 70-82.
https://doi.org/10.1016/j.ympev.2006.01.023
Peterson S., Bayer E., & Wicklow D. 2004. Penicillium thiersii, Penicillium angulare and Penicillium decaturense, new species isolated from wood-decay fungi in North America and their phylogenetic placement from multilocus DNA sequence analysis. Mycologia, 96 (6): 1280-1293.
https://doi.org/10.2307/3762145
Peterson S., Perez J., Vega F., & Infante F. 2003. Penicillium brocae, a new species associated with the coffee berry borer in Chiapas, Mexico. Mycologia, 95(1): 141-147.
https://doi.org/10.2307/3761973
Peterson, Rose D., et al. "Phylogenomics of Bony-Tongue Fishes (Osteoglossomorpha) Shed Light on the Craniofacial Evolution and Biogeography of the Weakly Electric Clade (Mormyridae)." Systematic Biology (2022).
https://doi.org/10.1093/sysbio/syac001
Peterson, Stephen W., Fernando E. Vega, Francisco Posada, and Chifumi Nagai. "Penicillium coffeae, a new endophytic species isolated from a coffee plant and its phylogenetic relationship to P. fellutanum, P. thiersii and P. brocae based on parsimony analysis of multilocus DNA sequences." Mycologia 97, no. 3 (2005): 659-666.
https://doi.org/10.3852/mycologia.97.3.659
Phillips, M. J., Bennett, T. H., & Lee, M. S. Y. (2009). Molecules, morphology, and ecology indicate a recent, amphibious ancestry for echidnas. Proceedings of the National Academy of Sciences, 106(40), 17089–17094. https://doi.org/10.1073/pnas.0904649106
https://doi.org/10.1073/pnas.0904649106
Phutthacharoen K., Chethana T., Stadler M., & Hyde K.D. 2021. Dicephalospora chiangraiensis sp. nov. (Helotiaceae, Helotiales) from Thailand. Mycobiology, .
No link provided! Try
Google Scholar or
CrossRef.org
Piekarski, P. K., Carpenter, J. M., Lemmon, A. R., Moriarty Lemmon, E., & Sharanowski, B. J. (2018). Phylogenomic Evidence Overturns Current Conceptions of Social Evolution in Wasps (Vespidae). Molecular Biology and Evolution, 35(9), 2097–2109. https://doi.org/10.1093/molbev/msy124
https://doi.org/10.1093/molbev/msy124
Pietersen, D. W., McKechnie, A. E., Jansen, R., Little, I. T., & Bastos, A. D. S. (2018). Multi‐locus phylogeny of African pipits and longclaws (Aves: Motacillidae) highlights taxonomic inconsistencies. Ibis, 161(4), 781–792. Portico. https://doi.org/10.1111/ibi.12683
https://doi.org/10.1111/ibi.12683
Pike, N., Whitfield, J. A., & Foster, W. A. (2007). Ecological correlates of sociality in Pemphigus aphids, with a partial phylogeny of the genus. BMC Evolutionary Biology, 7(1), 185. https://doi.org/10.1186/1471-2148-7-185
https://doi.org/10.1186/1471-2148-7-185
Pinto-Ledezma, J. N., Jahn, A. E., Cueto, V. R., Diniz-Filho, J. A. F., & Villalobos, F. (2019). Drivers of Phylogenetic Assemblage Structure of the Furnariides, a Widespread Clade of Lowland Neotropical Birds. The American Naturalist, 193(2), E41–E56. https://doi.org/10.1086/700696
https://doi.org/10.1086/700696
Pirie M.D., Litsios G., Bellstedt D., Salamin N., & Kissling J. 2015. Back to Gondwanaland: Can ancient vicariance explain (some) Indian Ocean disjunct plant distributions?. Biology Letters, .
https://doi.org/10.1098/rsbl.2015.0086
Pirie, M. D., Humphreys, A. M., Galley, C., Barker, N. P., Verboom, G. A., Orlovich, D., Draffin, S. J., Lloyd, K., Baeza, C. M., Negritto, M., Ruiz, E., Cota-Sánchez, J. H., Reimer, E., & Linder, H. P. 2008. A novel supermatrix approach improves resolution of phylogenetic relationships in a comprehenesive sample of danthonioid grasses. Molec. Phyl. Evol. 48: 48: 1106-1119.
https://doi.org/10.1016/j.ympev.2008.05.030
Pisanty, G., Richter, R., Martin, T., Dettman, J., & Cardinal, S. (2022). Molecular phylogeny, historical biogeography and revised classification of andrenine bees (Hymenoptera: Andrenidae). Molecular Phylogenetics and Evolution, 170, 107151. https://doi.org/10.1016/j.ympev.2021.107151
https://doi.org/10.1016/j.ympev.2021.107151
Pitra, Christian, Dietmar Lieckfeldt, Sylke Frahnert, Joerns Fickel. 2002. Phylogenetic relationships and ancestral areas of the bustards (Gruiformes: Otididae), inferred from mitochondrial DNA and nuclear intron sequences. Molecular Phylogenetics and Evolution 23 (1): 63-74.
https://doi.org/10.1006/mpev.2001.1078
Pldmaa K., Larsson E., & Kljalg U. 1999. Phylogenetic relationships in Hypomyces and allied genera, with emphasis on species growing on wood-decaying homobasidiomycetes. Canadian Journal of Botany, 77(12): 1756-1768.
https://doi.org/10.1139/cjb-77-12-1756
Plotkin, D., Breinholt, J. W., & Kawahara, A. Y. (2025). A target capture‐based phylogeny of emerald moths (Lepidoptera: Geometridae: Geometrinae) provides new insights into tribal‐level classification. Systematic Entomology, 50(4), 920–939. Portico. https://doi.org/10.1111/syen.12689
https://doi.org/10.1111/syen.12689
Pohl, M., Milvertz, F. C., Meyer, A., & Vences, M. (2015). Multigene phylogeny of cyprinodontiform fishes suggests continental radiations and a rogue taxon position of Pantanodon. Vertebrate Zoology, 65(1), 37-44.
No link provided! Try
Google Scholar or
CrossRef.org
Poli, A., Bovio, E., Perugini, I., Varese, G. C., & Prigione, V. (2021). Corollospora mediterranea: A Novel Species Complex in the Mediterranean Sea. Applied Sciences, 11(12), 5452. https://doi.org/10.3390/app11125452
https://doi.org/10.3390/app11125452
Pollock, D. (1995). Classification, reconstructed phylogeny and geographical history of genera of Pilipalpinae (Coleoptera : Tenebrionoidea : Pyrochroidae). Invertebrate Systematics, 9(4), 563. https://doi.org/10.1071/it9950563
https://doi.org/10.1071/it9950563
Porter T.M., Martin W., James T.Y., Longcore J.E., Gleason F.H., Adler P.H., Letcher P.M., & Vilgalys R. 2011. Molecular phylogeny of the Blastocladiomycota (Fungi) based on nuclear ribosomal DNA. Fungal Biology, 115 (4-5): 381-392.
https://doi.org/10.1016/j.funbio.2011.02.004
Portnoy D., Willis S., Hunt E., Swift D., Gold J., & Conway K.W. 2016. Molecular phylogenetics of New World searobins (Triglidae; Prionotinae). Molecular Phylogenetics and Evolution, .
No link provided! Try
Google Scholar or
CrossRef.org
Potter, D. [et al. 2007a], Eriksson, T., Evans, R. C., Oh, S., Smedmark, J. E. E., Morgan, D. R., Kerr, M., Robertson, K. R., Arsenault, M., Dickinson, T. A., & Campbell, C. S. 2007. Phylogeny and classification of Rosaceae. Plant Syst. Evol. 266: 5-43.
https://doi.org/10.1007/s00606-007-0539-9
Poux, C., Madsen O., Glos J., Jong W., & Vences M. 2008. Molecular phylogeny and divergence times of Malagasy tenrecs: influence of data partitioning and taxon sampling on dating analyses. BMC Evolutionary Biology 8: 102.
https://doi.org/10.1186/1471-2148-8-102
Powell, Alexis F.L.A., F. Keith Barker, Scott M. Lanyon, Kevin J. Burns, John Klicka, Irby J. Lovette. 2014. A comprehensive species-level molecular phylogeny of the New World blackbirds (Icteridae). Molecular Phylogenetics and Evolution 71: 94-112.
https://doi.org/10.1016/j.ympev.2013.11.009
Powell, G. S., Cline, A. R., Duffy, A. G., & Zaspel, J. M. (2020). Phylogeny and reclassification of Carpophilinae (Coleoptera: Nitidulidae), with insights into the origins of anthophily. Zoological Journal of the Linnean Society, 189(4), 1359–1369. https://doi.org/10.1093/zoolinnean/zlaa001
https://doi.org/10.1093/zoolinnean/zlaa001
Pozzi, Luca, Jason A. Hodgson, Andrew S. Burrell, Kirstin N. Sterner, Ryan L. Raaum, Todd R. Disotell. 2014. Primate phylogenetic relationships and divergence dates inferred from complete mitochondrial genomes. Molecular Phylogenetics and Evolution 75: 165-183.
https://doi.org/10.1016/j.ympev.2014.02.023
Pradeep K. Divakar, Steven D. Leavitt, M. Carmen Molina, Ruth Del-Prado, H. Thorsten Lumbsch, Ana Crespo, 2015, ' A DNA barcoding approach for identification of hidden diversity in Parmeliaceae (Ascomycota): P armelia sensu stricto as a case study ', Botanical Journal of the Linnean Society, vol. 180, no. 1, pp. 21-29
https://doi.org/10.1111/boj.12358
Price, Trevor D., Daniel M. Hooper, Caitlyn D. Buchanan, Ulf S. Johansson, D. Thomas Tietze, Per Alström, Urban Olsson, Mousumi Ghosh-Harihar, Farah Ishtiaq, Sandeep K. Gupta, Jochen Martens, Bettina Harr, Pratap Singh, Dhananjai Mohan. 2014. Niche filling slows the diversification of Himalayan songbirds. Nature 509: 222-225.
https://doi.org/10.1038/nature13272
Priscila Chaverri, Joseph F. Bischoff, Miao Liu, Kathie T. Hodge, 2005, 'A new species of Hypocrella, H. macrostroma, and its phylogenetic relationships to other species with large stromata', Mycological Research, vol. 109, no. 11, pp. 1268-1275
https://doi.org/10.1017/s0953756205003904
Prosanta Chakrabarty, Brant C. Faircloth, Fernando Alda, William B. Ludt, Caleb D. Mcmahan, Thomas J. Near, Alex Dornburg, James S. Albert, Jairo Arroyave, Melanie L. J. Stiassny, Laurie Sorenson, Michael E. Alfaro, 2017, 'Phylogenomic Systematics of Ostariophysan Fishes: Ultraconserved Elements Support the Surprising Non-Monophyly of Characiformes', Systematic Biology, vol. 66, no. 6, pp. 881-895
https://doi.org/10.1093/sysbio/syx038
Provost, K. L., Joseph, L., & Smith, B. T. (2018). Resolving a phylogenetic hypothesis for parrots: implications from systematics to conservation. Emu - Austral Ornithology, 118(1), 7–21. doi:10.1080/01584197.2017.1387030
https://doi.org/10.1080/01584197.2017.1387030
Prum, Richard O., Jacob S. Berv, Alex Dornburg, Daniel J. Field, Jeffrey P. Townsend, Emily Moriarty Lemmon, Alan R. Lemmon. 2015. A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing. Nature 526, (7574): 569-573
https://doi.org/10.1038/nature15697
Pulgarín-R, Paulo C., Brian Tilston Smith, Robert W. Bryson, Garth M. Spellman, John Klicka. 2013. Multilocus phylogeny and biogeography of the New World Pheucticus grosbeaks (Aves: Cardinalidae). Molecular Phylogenetics and Evolution 69 (3): 1222-1227.
https://doi.org/10.1016/j.ympev.2013.05.022
Pyron, R.A., & Wiens J.J. 2011. A large-scale phylogeny of Amphibia including over 2800 species, and a revised classification of extant frogs, salamanders, and caecilians. Molecular Phylogenetics Evolution 61 (2): 543-583.
https://doi.org/10.1016/j.ympev.2011.06.012
Pyron, Robert Alexander, Frank T Burbrink, John J Wiens. 2013. A phylogeny and revised classification of Squamata, including 4161 species of lizards and snakes. BMC Evolutionary Biology 13 (1): 93.
https://doi.org/10.1186/1471-2148-13-93
Päckert, M., Favre, A., Schnitzler, J., Martens, J., Sun, Y., Tietze, D. T., Hailer, F., Michalak, I., & Strutzenberger, P. (2020). “Into and Out of” the Qinghai‐Tibet Plateau and the Himalayas: Centers of origin and diversification across five clades of Eurasian montane and alpine passerine birds. Ecology and Evolution, 10(17), 9283–9300. Portico. https://doi.org/10.1002/ece3.6615
https://doi.org/10.1002/ece3.6615
Päckert, Martin , Jochen Martens, Lucia Liu Severinghaus. 2009. The Taiwan Firecrest (Regulus goodfellowi) belongs to the Goldcrest assemblage (Regulus regulus s. l.): evidence from mitochondrial DNA and the territorial song of the Regulidae. Journal of Ornithology 150 (1): 205-220.
https://doi.org/10.1007/s10336-008-0335-5
Päckert, Martin, Jochen Martens, Michael Wink, Anna Feigl, Dieter Thomas Tietze. 2012. Molecular phylogeny of Old World swifts (Aves: Apodiformes, Apodidae, Apus and Tachymarptis) based on mitochondrial and nuclear markers. Molecular Phylogenetics and Evolution 63 (3): 606-616.
https://doi.org/10.1016/j.ympev.2012.02.002
Päckert, Martin, Jochen Martens, Yue-Hua Sun, Lucia Liu Severinghaus, Alexander A. Nazarenko, Ji Ting, Till Töpfer, Dieter Thomas Tietze. 2011. Horizontal and elevational phylogeographic patterns of Himalayan and Southeast Asian forest passerines (Aves: Passeriformes). Journal of Biogeography 39 (3): 556-573.
https://doi.org/10.1111/j.1365-2699.2011.02606.x
Pérez-Losada M, Høeg JT, Crandall KA. 2012. Deep Phylogeny and Character Evolution in Thecostraca (Crustacea: Maxillopoda). Integrative and Comparative Biology 52(3):430-442.
https://doi.org/10.1093/icb/ics051
Pérez-Losada, M, Høeg JT, Crandall KA. 2009. Remarkable convergent evolution in specialized parasitic Thecostraca (Crustacea). BMC Biology 7: 15.
https://doi.org/10.1186/1741-7007-7-15
Pérez-Losada, M., Høeg, J. T., Simon-Blecher, N., Achituv, Y., Jones, D., & Crandall, K. A. (2014). Molecular phylogeny, systematics and morphological evolution of the acorn barnacles (Thoracica: Sessilia: Balanomorpha). Molecular phylogenetics and evolution, 81, 147-158.
https://doi.org/10.1016/j.ympev.2014.09.013
Qi Kou, Xinzheng Li, Tin-Yam Chan, Ka Hou Chu, Hui Huang, Zhibin Gan, 2013, 'Phylogenetic relationships among genera of the Periclimenes complex (Crustacea: Decapoda: Pontoniinae) based on mitochondrial and nuclear DNA', Molecular Phylogenetics and Evolution, vol. 68, no. 1, pp. 14-22
https://doi.org/10.1016/j.ympev.2013.03.010
Qi Kou, Xinzheng Li, Tin-Yam Chan, Ka Hou Chu, Zhibin Gan, 2013, 'Molecular phylogeny of the superfamily Palaemonoidea (Crustacea : Decapoda : Caridea) based on mitochondrial and nuclear DNA reveals discrepancies with the current classification', Invertebrate Systematics, vol. 27, no. 5, p. 502
https://doi.org/10.1071/is13005
Qing, X., Zhang, Y. M., Sun, S., Ahmed, M., Lo, W.-S., Bert, W., Holovachov, O., & Li, H. (2024). Phylogenomic Insights into the Evolution and Origin of Nematoda. Systematic Biology, 74(3), 349–358. https://doi.org/10.1093/sysbio/syae073
https://doi.org/10.1093/sysbio/syae073
Qiu, Y.-L., Li, L., Wang, B., Chen, Z., Knoop, V., Groth-Malonek, M., Dombrovska, O., Lee, J., Kent, L., Rest, J. S., Estabrook, G. F., Hendry, T. A., Taylor, D. W., Testa, C. M., Ambros, M., Crandall-Stotler, B., Duff, R. J., Stech, M., Frey, W., Quandt, D., & Davis, C. C. 2006. The deepest divergences in land plants inferred from phylogenomic evidence. Proc. National Acad. Sci. U.S.A. 103: 15511-15516.
https://doi.org/10.1073/pnas.0603335103
R. Gazis, D. Skaltsas, P. Chaverri, 2014, 'Novel endophytic lineages of Tolypocladium provide new insights into the ecology and evolution of Cordyceps-like fungi', Mycologia, vol. 106, no. 6, pp. 1090-1105
https://doi.org/10.3852/13-346
R. J. Machida, M. U. Miya, M. Nishida, S. Nishida, 2006, 'Molecular phylogeny and evolution of the pelagic copepod genus Neocalanus (Crustacea: Copepoda)', Marine Biology, vol. 148, no. 5, pp. 1071-1079
https://doi.org/10.1007/s00227-005-0140-0
R. W. Thacker, A. L. Hill, M. S. Hill, N. E. Redmond, A. G. Collins, C. C. Morrow, L. Spicer, C. A. Carmack, M. E. Zappe, D. Pohlmann, C. Hall, M. C. Diaz, P. V. Bangalore, 2013, 'Nearly Complete 28S rRNA Gene Sequences Confirm New Hypotheses of Sponge Evolution', Integrative and Comparative Biology, vol. 53, no. 3, pp. 373-387
https://doi.org/10.1093/icb/ict071
R.J. Van Syoc, J.N. Fernandes, D.A. Carrison, R.K. Grosberg, 2010, 'Molecular phylogenetics and biogeography of Pollicipes (Crustacea: Cirripedia), a Tethyan relict', Journal of Experimental Marine Biology and Ecology, vol. 392, no. 1-2, pp. 193-199
https://doi.org/10.1016/j.jembe.2010.04.024
REGIER, J. C., COOK, C. P., MITTER, C., & HUSSEY, A. (2008). A phylogenetic study of the ‘bombycoid complex’ (Lepidoptera) using five protein‐coding nuclear genes, with comments on the problem of macrolepidopteran phylogeny. Systematic Entomology, 33(1), 175–189. Portico. https://doi.org/10.1111/j.1365-3113.2007.00409.x
https://doi.org/10.1111/j.1365-3113.2007.00409.x
RIEDEL, A., TÄNZLER, R., PONS, J., SUHARDJONO, Y. R., & BALKE, M. (2016). Large‐scale molecular phylogeny of Cryptorhynchinae (Coleoptera, Curculionidae) from multiple genes suggests American origin and later Australian radiation. Systematic Entomology, 41(2), 492–503. Portico. https://doi.org/10.1111/syen.12170
https://doi.org/10.1111/syen.12170
RIGHETTI, N., NICOLINI, F., FORNI, G., & LUCHETTI, A. (2025). Towards a time-tree solution for Branchiopoda diversification: a jackknife assessment of fossil age priors. Palaeoentomology, 8(3), 316–328. https://doi.org/10.11646/palaeoentomology.8.3.8
https://doi.org/10.11646/palaeoentomology.8.3.8
ROBERT G. MOYLE, 2005, 'Phylogeny and biogeographical history of Trogoniformes, a pantropical bird order', Biological Journal of the Linnean Society, vol. 84, no. 4, pp. 725-738
https://doi.org/10.1111/j.1095-8312.2005.00435.x
ROBERT G. MOYLE, R TERRY CHESSER, RICHARD O. PRUM, PETER SCHIKLER, JOEL CRACRAFT, 2006, 'Phylogeny and Evolutionary History of Old World Suboscine Birds (Aves: Eurylaimides)', American Museum Novitates, vol. 3544, no. 1, p. 1
https://doi.org/10.1206/0003-0082(2006)3544[1:paehoo]2.0.co;2
ROBERTSON, J. A., & MOORE, W. (2016). Phylogeny of
<scp>P</scp>
aussus
<scp>L</scp>
. (
<scp>C</scp>
arabidae:
<scp>P</scp>
aussinae): unravelling morphological convergence associated with myrmecophilous life histories. Systematic Entomology, 42(1), 134–170. Portico. https://doi.org/10.1111/syen.12205
https://doi.org/10.1111/syen.12205
ROBERTSON, J. A., ŚLIPIŃSKI, A., HIATT, K., MILLER, K. B., WHITING, M. F., & MCHUGH, J. V. (2012). Molecules, morphology and minute hooded beetles: a phylogenetic study with implications for the evolution and classification of Corylophidae (Coleoptera: Cucujoidea). Systematic Entomology, 38(1), 209–232. Portico. https://doi.org/10.1111/j.1365-3113.2012.00655.x
https://doi.org/10.1111/j.1365-3113.2012.00655.x
ROBERTSON, J. A., ŚLIPIŃSKI, A., MOULTON, M., SHOCKLEY, F. W., GIORGI, A., LORD, N. P., MCKENNA, D. D., TOMASZEWSKA, W., FORRESTER, J., MILLER, K. B., WHITING, M. F., & MCHUGH, J. V. (2015). Phylogeny and classification of<scp>C</scp>ucujoidea and the recognition of a new superfamily<scp>C</scp>occinelloidea (<scp>C</scp>oleoptera:<scp>C</scp>ucujiformia). Systematic Entomology, 40(4), 745–778. Portico. https://doi.org/10.1111/syen.12138
https://doi.org/10.1111/syen.12138
ROCHA, M. M., CANCELLO, E. M., & CARRIJO, T. F. (2012). Neotropical termites: revision ofArmitermesWasmann (Isoptera, Termitidae, Syntermitinae) and phylogeny of the Syntermitinae. Systematic Entomology, 37(4), 793–827. Portico. https://doi.org/10.1111/j.1365-3113.2012.00645.x
https://doi.org/10.1111/j.1365-3113.2012.00645.x
Rahman M.Z., Uematsu S., Coffey M.D., Uzuhashi S., Suga H., & Koji K. 2014. Re-evaluation of Japanese Phytophthora isolates based on molecular phylogenetic analyses. Mycoscience, 55(4): 314-327.
https://doi.org/10.1016/j.myc.2013.11.005
Rajmohan, N., Gianfagna, T. J., Meca, G., Moretti, A., & Zhang, N. (2011). Molecular identification and mycotoxin production of Lilium longiflorum-associated fusaria isolated from two geographic locations in the United States. European journal of plant pathology, 131(4), 631-642.
https://doi.org/10.1007/s10658-011-9838-7
Ralph S. Peters, Lars Krogmann, Christoph Mayer, Alexander Donath, Simon Gunkel, Karen Meusemann, Alexey Kozlov, Lars Podsiadlowski, Malte Petersen, Robert Lanfear, Patricia A. Diez, John Heraty, Karl M. Kjer, Seraina Klopfstein, Rudolf Meier, Carlo Polidori, Thomas Schmitt, Shanlin Liu, Xin Zhou, Torsten Wappler, Jes Rust, Bernhard Misof, Oliver Niehuis, 2017, 'Evolutionary History of the Hymenoptera', Current Biology
https://doi.org/10.1016/j.cub.2017.01.027
Ramirez, J.L., C.Y. Miyaki, S.N. Del Lama. 2013. Molecular phylogeny of Threskiornithidae (Aves: Pelecaniformes) based on nuclear and mitochondrial DNA. Genetics and Molecular Research 12 (3): 2740-2750.
https://doi.org/10.4238/2013.july.30.11
Rancilhac, L., de Souza, S. G., Lukhele, S. M., Sebastianelli, M., Ogolowa, B. O., Moysi, M., Nikiforou, C., Asfaw, T., Downs, C. T., Brelsford, A., vonHoldt, B. M., & Kirschel, A. N. G. (2024). Introgression across narrow contact zones shapes the genomic landscape of phylogenetic variation in an African bird clade. https://doi.org/10.1101/2024.08.13.607717
https://doi.org/10.1101/2024.08.13.607717
Reboud, E. L., Nabholz, B., Chevalier, E., Lafon, B. J., Tilak, M., Mielke, C. G. C., Cotton, A. M., & Condamine, F. L. (2024). Clarifying the phylogeny and systematics of the recalcitrant tribe Leptocircini (Lepidoptera: Papilionidae) with whole‐genome data. Systematic Entomology, 50(2), 387–414. Portico. https://doi.org/10.1111/syen.12661
https://doi.org/10.1111/syen.12661
Redden, K. M. [et al. 2010], Herendeen, P. S., Wurdack, K. J., & Bruneau, A. 2010. Phylogenetic relationships of the northeatern South American Brownea clade of tribe Detarieae (Leguminosae: Caesalpinioideae) based on morphology and molecular data. Syst. Bot. 35: 524-533.
https://doi.org/10.1600/036364410792495863
Reddy, Sushma, Rebecca T. Kimball, Akanksha Pandey, Peter A. Hosner, Michael J. Braun, Shannon J. Hackett, Kin-Lan Han, John Harshman, Christopher J. Huddleston, Sarah Kingston, Ben D. Marks, Kathleen J. Miglia, William S. Moore, Frederick H. Sheldon, Christopher C. Witt, Tamaki Yuri, Edward L. Braun. 2017. Why do phylogenomic data sets yield conflicting trees? Data type influences the avian tree of life more than taxon sampling. Systematic Biology
https://doi.org/10.1093/sysbio/syx041
Redmond, N. E., Morrow, C. C., Thacker, R. W., Diaz, M. C., Boury-Esnault, N., Cárdenas, P., Hajdu, E., Lobo-Hajdu, G., Picton, B.E., Pomponi, S.A., Kayal, E., Collins, A. G. 2013. Phylogeny and systematics of Demospongiae in light of new small-subunit ribosomal DNA (18S) sequences. Integrative and Comparative Biology 53 (3): 388-415.
https://doi.org/10.1093/icb/ict078
Reese Næsborg R. 2007. Taxonomic revision of the Lecania cyrtella group (Ramalinaceae, lichenized Ascomycota) based on molecular and morphological evidence. Mycologia, 100 (3): 397-416.
https://doi.org/10.3852/07-080R
Regier, JC, Mitter C, Zwick A, Bazinet AL, Cummings MP, et al. (2013) A large-scale, higher-level, molecular phylogenetic study of the insect order Lepidoptera (moths and butterflies). PLoS ONE 8 (3): e58568
https://doi.org/10.1371/journal.pone.0058568
Rehner S.A., & Minnis A.M. 2011. Phylogenetic systematics of the anamorphic entomopathogen Beauveria. Mycologia, 103 (5): 1055-1073.
https://doi.org/10.3852/10-302
Reis, F., Kirsch, R., Pauchet, Y., Bauer, E., Bilz, L. C., Fukumori, K., Fukatsu, T., Kölsch, G., & Kaltenpoth, M. (2020). Bacterial symbionts support larval sap feeding and adult folivory in (semi-)aquatic reed beetles. Nature Communications, 11(1). https://doi.org/10.1038/s41467-020-16687-7
https://doi.org/10.1038/s41467-020-16687-7
Ren C. 2016. Phylogenetic position and independent generic status of Indocypraea (Asteraceae-Heliantheae-Ecliptinae): evidence from chloroplast DNA sequences. Phytotaxa, .
https://doi.org/10.11646/phytotaxa.277.2.2
Rengifo E.M., & Pacheco V. 2017. Phylogenetic position of the Ancash-eared mouse, Phyllotis definitus Osgood 1915 (Rodentia: Cricetidae). Mammalia, .
https://doi.org/10.1515/mammalia-2016-0138
Renner S.S., Schaefer H., & Kocyan A. 2007. Phylogenetics of Cucumis (Cucurbitaceae): C. sativus (cucumber) belongs in an Asian/Australian clade far from C. melo (melon). BMC Evolutionary Biology, 7: 58.
https://doi.org/10.1186/1471-2148-7-58
Revely, L., Eggleton, P., Clement, R., Zhou, C., & Bishop, T. R. (2024). The diversity of social complexity in termites. Proceedings of the Royal Society B: Biological Sciences, 291(2024). https://doi.org/10.1098/rspb.2023.2791
https://doi.org/10.1098/rspb.2023.2791
Reynolds, R. Graham, Matthew L. Niemiller, Liam J. Revell. 2014. Toward a Tree-of-Life for the boas and pythons: Multilocus species-level phylogeny with unprecedented taxon sampling. Molecular Phylogenetics and Evolution 71: 201-213.
https://doi.org/10.1016/j.ympev.2013.11.011
Rheindt, Frank E., Janette A. Norman, Les Christidis. 2008. Phylogenetic relationships of tyrant-flycatchers (Aves: Tyrannidae), with an emphasis on the elaeniine assemblage. Molecular Phylogenetics and Evolution 46 (1): 88-101
https://doi.org/10.1016/j.ympev.2007.09.011
Ribas, C. C., A. Aleixo, A. C. R. Nogueira, C. Y. Miyaki, J. Cracraft, 2011. A palaeobiogeographic model for biotic diversification within Amazonia over the past three million years. Proceedings of the Royal Society B: Biological Sciences 279 (1729): 681-689.
https://doi.org/10.1098/rspb.2011.1120
Ribas, Camila C., Cristina Y. Miyaki, Joel Cracraft. 2009. Phylogenetic relationships, diversification and biogeography in Neotropical Brotogeris parakeets. Journal of Biogeography 36 (9): 1712-1729.
https://doi.org/10.1111/j.1365-2699.2009.02131.x
Ribas, Camila C., Leo Joseph, Cristina Y. Miyaki. 2006. Molecular systematics and patterns of diversification in Pyrrhura (Psittacidae), with special reference to the picta-leucotis complex. The Auk 123 (3): 660-680.
https://doi.org/10.1642/0004-8038(2006)123[660:msapod]2.0.co;2
Ribeiro R., Lavin M., Filho J., Filho C., Santos F., & Lovato M. 2007. The genus Machaerium (Leguminosae) is more closely related to Aeschynomene Sect. Ochopodium than to Dalbergia: inferences from combined sequence data. Systematic Botany, 32(4).
https://doi.org/10.1600/036364407783390700
Ribera, I., Bilton, D. T., Balke, M., & Hendrich, L. (2003). Evolution, mitochondrial DNA phylogeny and systematic position of the Macaronesian endemic Hydrotarsus Falkenström (Coleoptera: Dytiscidae). Systematic Entomology, 28(4), 493–508. Portico. https://doi.org/10.1046/j.1365-3113.2003.00226.x
https://doi.org/10.1046/j.1365-3113.2003.00226.x
Ricardo Kriebel, Fabián A. Michelangeli, Lawrence M. Kelly, 2015, 'Discovery of unusual anatomical and continuous characters in the evolutionary history of Conostegia (Miconieae: Melastomataceae)', Molecular Phylogenetics and Evolution, vol. 82, pp. 289-313
https://doi.org/10.1016/j.ympev.2014.09.021
Riccieri, A., Mancini, E., Pitzalis, M., Salvi, D., & Bologna, M. A. (2022). Multigene phylogeny of blister beetles (Coleoptera, Meloidae) reveals extensive polyphyly of the tribe Lyttini and allows redefining its boundaries. Systematic Entomology, 47(4), 569–580. Portico. https://doi.org/10.1111/syen.12547
https://doi.org/10.1111/syen.12547
Riccieri, A., Mancini, E., Salvi, D., & Bologna, M. A. (2020). Phylogeny, biogeography and systematics of the hyper-diverse blister beetle genus Hycleus (Coleoptera: Meloidae). Molecular Phylogenetics and Evolution, 144, 106706. https://doi.org/10.1016/j.ympev.2019.106706
https://doi.org/10.1016/j.ympev.2019.106706
Rice, Nathan H. 2005. Phylogenetic relationships of antpitta genera (Passeriformes: Formicariidae). The Auk 122 (2): 673-683.
https://doi.org/10.1642/0004-8038(2005)122[0673:proagp]2.0.co;2
Richard C. Harrington, Thomas J. Near, 2015, 'Phylogenetic relationships of Goneaperca and the evolution of parental care in darters (Teleostei: Percidae)', Molecular Phylogenetics and Evolution, vol. 84, pp. 158-165
https://doi.org/10.1016/j.ympev.2015.01.002
Richard T. Lapoint, Alexander Gidaya, Patrick M. O’Grady, 2011, 'Phylogenetic relationships in the spoon tarsus subgroup of Hawaiian drosophila: Conflict and concordance between gene trees', Molecular Phylogenetics and Evolution, vol. 58, no. 3, pp. 492-501
https://doi.org/10.1016/j.ympev.2010.12.015
Riebesehl J., Langer E.J., Ordynets A., Striegel M.M., & Witzany C. 2015. Hyphodontia borbonica, a new species from La Reunion. Mycol Progress, 14: 104.
https://doi.org/10.1007/s11557-015-1126-z
Riina R., Berry P., & Ee B. 2009. Molecular phylogenetics of the dragon's blood Croton
section Cyclostigma (Euphorbiaceae), a polyphyletic assemblage unraveled.
Systematic Botany, 34(2): 360-374.
https://doi.org/10.1016/j.ympev.2011.04.013
Riley-Hulting, E. T., Delgado-Salinas, A., & Lavin, M. (2004). Phylogenetic systematics of Strophostyles (Fabaceae): a North American temperate genus within a neotropical diversification. Systematic Botany, 29(3), 627-653.
https://doi.org/10.1600/0363644041744464
Risede J., & Simoneau P. 2001. Typing Cylindrocladium species by analysis of ribosomal DNA spacers polymorphism: application to field isolates from the banana rhizosphere. Mycologia, 93(3): 494-504.
https://doi.org/10.2307/3761735
Riser, J. P., Cardinal-McTeague, W. M., Hall, J. C., Hahn, W. J., Sytsma, K. J., & Roalson, E. H. (2013). Phylogenetic relationships among the North American cleomoids (Cleomaceae): A test of Iltis’s reduction series. American Journal of Botany, 100(10), 2102–2111. doi:10.3732/ajb.1300096
https://doi.org/10.3732/ajb.1300096
Robert Alexander Pyron, Sumaithangi Rajagopalan Ganesh, Amit Sayyed, Vivek Sharma, Van Wallach, Ruchira Somaweera, 2016, 'A catalogue and systematic overview of the shield-tailed snakes (Serpentes: Uropeltidae)', Zoosystema, vol. 38, no. 4, pp. 453-506
https://doi.org/10.5252/z2016n4a2
Robert G. Moyle, 2006, 'A MOLECULAR PHYLOGENY OF KINGFISHERS (ALCEDINIDAE) WITH INSIGHTS INTO EARLY BIOGEOGRAPHIC HISTORY', The Auk, vol. 123, no. 2, p. 487
https://doi.org/10.1642/0004-8038(2006)123[487:ampoka]2.0.co;2
Robert G. Moyle, Ben D. Marks, 2006, 'Phylogenetic relationships of the bulbuls (Aves: Pycnonotidae) based on mitochondrial and nuclear DNA sequence data', Molecular Phylogenetics and Evolution, vol. 40, no. 3, pp. 687-695
https://doi.org/10.1016/j.ympev.2006.04.015
Robert G. Moyle, Beth Slikas, Linda A. Whittingham, David W. Winkler, Frederick H. Sheldon, 2008, 'DNA Sequence assessment of phylogenetic relationships among New World martins (Hirundinidae: Progne)', The Wilson Journal of Ornithology, vol. 120, no. 4, pp. 683-691
https://doi.org/10.1676/07-131.1
Robert G. Moyle, Joel Cracraft, Maklarin Lakim, Jamili Nais, Frederick H. Sheldon, 2006, 'Reconsideration of the phylogenetic relationships of the enigmatic Bornean Bristlehead (Pityriasis gymnocephala)', Molecular Phylogenetics and Evolution, vol. 39, no. 3, pp. 893-898
https://doi.org/10.1016/j.ympev.2006.01.024
Robert G. Moyle, Jérôme Fuchs, Eric Pasquet, Ben D. Marks, 2007, 'Feeding behavior, toe count, and the phylogenetic relationships among alcedinine kingfishers (Alcedininae)', Journal of Avian Biology, vol. 38, no. 3, pp. 317-326
https://doi.org/10.1111/j.2007.0908-8857.03921.x
Robert J. Van Syoc, William A. Newman, 2010, 'Morphology and evolutionary ecology of a sponge-barnacle symbiosis: Four new genera of barnacles (Archaeobalanidae, Bryozobiinae)', Journal of Experimental Marine Biology and Ecology, vol. 392, no. 1-2, pp. 65-88
https://doi.org/10.1016/j.jembe.2010.04.011
Robert S. Anderson, 2005, 'New Oxycoryninae from Central and South America: phylogenetic and biogeographical implications (Coleoptera: Belidae)', Systematic Entomology, vol. 30, no. 4, pp. 644-652
https://doi.org/10.1111/j.1365-3113.2005.00304.x
Robert W. Bryson, Jaime Chaves, Brian Tilston Smith, Matthew J. Miller, Kevin Winker, Jorge L. Pérez-Emán, John Klicka, 2014, 'Diversification across the New World within the ‘blue’ cardinalids (Aves: Cardinalidae)', Journal of Biogeography, vol. 41, no. 3, pp. 587-599
https://doi.org/10.1111/jbi.12218
Robertson, J. A., McHugh, J. V., & Whiting, M. F. (2004). A molecular phylogenetic analysis of the pleasing fungus beetles (Coleoptera: Erotylidae): evolution of colour patterns, gregariousness and mycophagy. Systematic Entomology, 29(2), 173–187. Portico. https://doi.org/10.1111/j.0307-6970.2004.00242.x
https://doi.org/10.1111/j.0307-6970.2004.00242.x
Robertson, J. A., Whiting, M. F., & McHugh, J. V. (2008). Searching for natural lineages within the Cerylonid Series (Coleoptera: Cucujoidea). Molecular Phylogenetics and Evolution, 46(1), 193–205. https://doi.org/10.1016/j.ympev.2007.09.017
https://doi.org/10.1016/j.ympev.2007.09.017
Rocha Filho, L. C. D., & Packer, L. (2016). Phylogeny of the cleptoparasitic Megachilini generaCoelioxysandRadoszkowskiana, with the description of six new subgenera inCoelioxys(Hymenoptera: Megachilidae). Zoological Journal of the Linnean Society. Portico. https://doi.org/10.1111/zoj.12484
https://doi.org/10.1111/zoj.12484
Rocha, I. C., Nessimian, J. L., & Santos, A. P. M. (2025). Systematics, divergence dating and historical biogeography of Ochrotrichiinae (Trichoptera: Hydroptilidae) based on morphological and molecular data. Systematic Entomology, 50(4), 1005–1024. Portico. https://doi.org/10.1111/syen.12695
https://doi.org/10.1111/syen.12695
Rodriguez, J., Frese, M., Dettmann, M., Chavoshi‐Jolfaei, M., & Macdonald, J. (2024). A new exceptionally preserved sawfly fossil (Hymenoptera: Pergidae) and an evaluation of its utility for divergence time estimation and biogeography. Systematic Entomology, 50(1), 237–251. Portico. https://doi.org/10.1111/syen.12653
https://doi.org/10.1111/syen.12653
Rohland, Nadin, David Reich, Swapan Mallick, Matthias Meyer, Richard E. Green, Nicholas J. Georgiadis, Alfred L. Roca, Michael Hofreiter. 2010. Genomic DNA Sequences from Mastodon and Woolly Mammoth Reveal Deep Speciation of Forest and Savanna Elephants. PLoS Biology 8 (12): e1000564.
https://doi.org/10.1371/journal.pbio.1000564
Rojas D., Warsi O., & Davalos L.M. 2016. Bats (Chiroptera: Noctilionoidea) challenge a recent origin of extant neotropical diversity. Systematic Biology, 65(3): 432-448.
https://doi.org/10.1093/sysbio/syw011
Rokas A., Melika G., Abe Y., Nieves-aldrey J., Cook J., & Stone G. 2003. Lifecycle closure, lineage sorting and hybridization revealed in a phylogenetic analysis of European oak gallwasps (Hymenoptera: Cynipidae: Cynipini) using mitochondrial sequence data. Molecular Phylogenetics and Evolution, 26(1): 36-45.
https://doi.org/10.1016/S1055-7903(02)00329-9
Romain Derelle, Guifré Torruella, Vladimír Klimeš, Henner Brinkmann, Eunsoo Kim, Čestmír Vlček, B. Franz Lang, Marek Eliáš, 2015, 'Bacterial proteins pinpoint a single eukaryotic root', Proceedings of the National Academy of Sciences, vol. 112, no. 7, pp. E693-E699
https://doi.org/10.1073/pnas.1420657112
Rony Huys, Farrah Fatih, Susumu Ohtsuka, Julia Llewellyn-Hughes, 2012, 'Evolution of the bomolochiform superfamily complex (Copepoda: Cyclopoida): New insights from ssrDNA and morphology, and origin of umazuracolids from polychaete-infesting ancestors rejected', International Journal for Parasitology, vol. 42, no. 1, pp. 71-92
https://doi.org/10.1016/j.ijpara.2011.10.009
Rony Huys, Jacqueline Mackenzie-Dodds, Julia Llewellyn-Hughes, 2009, 'Cancrincolidae (Copepoda, Harpacticoida) associated with land crabs: A semiterrestrial leaf of the ameirid tree', Molecular Phylogenetics and Evolution, vol. 51, no. 2, pp. 143-156
https://doi.org/10.1016/j.ympev.2008.12.007
Rony Huys, Julia Llewellyn-Hughes, Sophie Conroy-Dalton, Peter D. Olson, Jennifer N. Spinks, David A. Johnston, 2007, 'Extraordinary host switching in siphonostomatoid copepods and the demise of the Monstrilloida: Integrating molecular data, ontogeny and antennulary morphology', Molecular Phylogenetics and Evolution, vol. 43, no. 2, pp. 368-378
https://doi.org/10.1016/j.ympev.2007.02.004
Rossel, S., & Martínez Arbizu, P. (2019). Revealing higher than expected diversity of Harpacticoida (Crustacea:Copepoda) in the North Sea using MALDI-TOF MS and molecular barcoding. Scientific Reports, 9(1). https://doi.org/10.1038/s41598-019-45718-7
https://doi.org/10.1038/s41598-019-45718-7
Rota-Stabelli, O., L. Campbell, H. Brinkmann, G. D. Edgecombe, S. J. Longhorn, K. J. Peterson, D. Pisani, H. Philippe, M. J. Telford. 2011. A congruent solution to arthropod phylogeny: phylogenomics, microRNAs and morphology support monophyletic Mandibulata. Proceedings of the Royal Society B: Biological Sciences 278 (1703): 298-306.
https://doi.org/10.1098/rspb.2010.0590
Rota-Stabelli, O., Lartillot, N., Philippe, H., and Pisani, D. 2013. Serine codon-usage bias in deep phylogenomics: Pancrustacean relationships as a case study. Systematic Biology 62 (1): 121-133.
https://doi.org/10.1093/sysbio/sys077
Roterman, CN, Copley JT, Linse KT, Tyler PA, Rogers AD. 2013 The biogeography of the yeti crabs (Kiwaidae) with notes on the phylogeny of the Chirostyloidea (Decapoda: Anomura). Proceedings of the Royal Society B 280 (1764): 20130718
https://doi.org/10.1098/rspb.2013.0718
Rouhan G., Rakotondrainibe F., & Moran R. 2007. Elaphoglossum nidusoides (Dryopteridaceae), a new species of fern from Madagascar with an unusual phylogenetic position in the Squamipedia group. Systematic Botany,32(2), 227-235.
https://doi.org/10.1600/036364407781179662
Rouhan, G., Hanks, J. G., McClelland, D., & Moran, R. C. (2007). Preliminary phylogenetic analysis of the fern genus Lomariopsis (Lomariopsidaceae). Brittonia, 59(2), 115-128.
https://doi.org/10.1663/0007-196X(2007)59[115:PPAOTF]2.0.CO;2
Rouse, G., Goffredi S., & Vrijenhoek R. 2004. Osedax: bone-eating marine worms with dwarf males. Science 305 (5684): 668-671.
https://doi.org/10.1126/science.1098650
Rowan J. Schley, Manuel de la Estrella, Oscar Alejandro Pérez-Escobar, Anne Bruneau, Timothy Barraclough, Félix Forest, Bente Klitgård, 2018, 'Is Amazonia a ‘museum’ for Neotropical trees? The evolution of the Brownea clade (Detarioideae, Leguminosae)', Molecular Phylogenetics and Evolution, vol. 126, pp. 279-292
https://doi.org/10.1016/j.ympev.2018.04.029
Royero R. 1999. Studies on the systematics and phylogeny of the catfish family Auchenipteridae (Teleostei: Siluriformes)., Bristol, University of Bristol.
No link provided! Try
Google Scholar or
CrossRef.org
Rubilar-rogers D., Otero R.A., Yury-yáñez R.E., Vargas A.O., & Gutstein C.S. 2012. An overview of the dinosaur fossil record from Chile. Journal of South American Earth Sciences, : 1-14.
https://doi.org/10.1016/j.jsames.2012.03.003
Ruhfel, Brad R, Matthew A Gitzendanner, Pamela S Soltis, Douglas E Soltis, J Burleigh. 2014. From algae to angiosperms–inferring the phylogeny of green plants (Viridiplantae) from 360 plastid genomes. BMC Evolutionary Biology 14 (1): 23
https://doi.org/10.1186/1471-2148-14-23
Russello, Michael A, George Amato. 2004. A molecular phylogeny of Amazona: implications for Neotropical parrot biogeography, taxonomy, and conservation. Molecular Phylogenetics and Evolution 30 (2): 421-437.
https://doi.org/10.1016/s1055-7903(03)00192-1
Ryan A Folk, Clayton J Visger, Pamela S Soltis, Douglas E Soltis, Robert P Guralnick, 2017, 'Geographic range dynamics drove ancient hybridization in a lineage of angiosperms'
https://doi.org/10.1101/129189
Ryan A. Folk, Jennifer R. Mandel, John V. Freudenstein, 2016, 'Ancestral Gene Flow and Parallel Organellar Genome Capture Result in Extreme Phylogenomic Discord in a Lineage of Angiosperms', Systematic Biology, p. syw083
https://doi.org/10.1093/sysbio/syw083
Ryan, J. F., K. Pang, C. E. Schnitzler, A.-D. Nguyen, R. T. Moreland, D. K. Simmons, B. J. Koch, W. R. Francis, P. Havlak, S. A. Smith, N. H. Putnam, S. H. D. Haddock, C. W. Dunn, T. G. Wolfsberg, J. C. Mullikin, M. Q. Martindale, A. D. Baxevanis. 2013. The genome of the ctenophore Mnemiopsis leidyi and its implications for cell type evolution. Science 342 (6164): 1242592-1242592.
https://doi.org/10.1126/science.1242592
Rydin, C., & Korall, P. (2009). Evolutionary relationships in Ephedra (Gnetales), with implications for seed plant phylogeny. International journal of plant sciences, 170(8), 1031-1043.
https://doi.org/10.1086/605116
Ryo Matsuzaki, Yoshiaki Hara, Hisayoshi Nozaki, 2014, ' A taxonomic study of snow Chloromonas species (Volvocales, Chlorophyceae) based on light and electron microscopy and molecular analysis of cultured material ', Phycologia, vol. 53, no. 3, pp. 293-304
https://doi.org/10.2216/14-3.1
Ryota Hayashi, Benny K.K. Chan, Noa Simon-Blecher, Hiromi Watanabe, Tamar Guy-Haim, Takahiro Yonezawa, Yaniv Levy, Takuho Shuto, Yair Achituv. 2013. Phylogenetic position and evolutionary history of the turtle and whale barnacles (Cirripedia: Balanomorpha: Coronuloidea). Molecular Phylogenetics and Evolution 67(1):9-14.
https://doi.org/10.1016/j.ympev.2012.12.018
Réblová M., Fournier J., & Stepanek V. 2016. Two new lineages of aquatic ascomycetes: Atractospora gen. nov. and Rubellisphaeria gen. et sp. nov., and a sexual morph of Myrmecridium montsegurinum sp. nov. Mycological Progress, 15: 21.
https://doi.org/10.1007/s11557-016-1166-z
Rønsted, N., Savolainen, V., Mølgaard, P., & Jäger, A. K. (2008). Phylogenetic selection of Narcissus species for drug discovery. Biochemical Systematics and Ecology, 36(5), 417-422.
https://doi.org/10.1016/j.bse.2007.12.010
Rønsted, N., Zubov, D., Bruun-Lund, S., & Davis, A. P. (2013).Snowdrops falling slowly into place: An improved phylogeny for Galanthus (Amaryllidaceae). Molecular phylogenetics and evolution.
https://doi.org/10.1016/j.ympev.2013.05.019
Rüber, L., Kottelat M., Tan H., Ng P., & Britz R. 2007. Evolution of miniaturization and the phylogenetic position of Paedocypris, comprising the world's smallest vertebrate. BMC Evolutionary Biology 7 (38): 1-10.
https://doi.org/10.1186/1471-2148-7-38
S. A. Smith, M. J. Donoghue. 2008. "Rates of Molecular Evolution Are Linked to Life History in Flowering Plants" Science. 322(5898). 86-89.
https://doi.org/10.1126/science.1163197
S. T. Friedman, S. A. Price, A. S. Hoey, P. C. Wainwright, 2016, 'Ecomorphological convergence in planktivorous surgeonfishes', Journal of Evolutionary Biology, vol. 29, no. 5, pp. 965-978
https://doi.org/10.1111/jeb.12837
S. Watanabe, K. Fucikova, L. A. Lewis, P. O. Lewis, 2016, 'Hiding in plain sight: Koshicola spirodelophila gen. et sp. nov. (Chaetopeltidales, Chlorophyceae), a novel green alga associated with the aquatic angiosperm Spirodela polyrhiza', American Journal of Botany, vol. 103, no. 5, pp. 865-875
https://doi.org/10.3732/ajb.1500481
S.J. Longo, B.C. Faircloth, A. Meyer, M.W. Westneat, M.E. Alfaro, P.C. Wainwright, 2017, 'Phylogenomic analysis of a rapid radiation of misfit fishes (Syngnathiformes) using ultraconserved elements', Molecular Phylogenetics and Evolution, vol. 113, pp. 33-48
https://doi.org/10.1016/j.ympev.2017.05.002
SANTOS, A. P. M., NESSIMIAN, J. L., & TAKIYA, D. M. (2016). Revised classification and evolution of leucotrichiine microcaddisflies (Trichoptera: Hydroptilidae) based on morphological and molecular data. Systematic Entomology, 41(2), 458–480. Portico. https://doi.org/10.1111/syen.12168
https://doi.org/10.1111/syen.12168
SARAH J. ADAMOWICZ, SILVINA MENU-MARQUE, PAUL D. N. HEBERT, ANDY PURVIS, 2007, 'Molecular systematics and patterns of morphological evolution in the Centropagidae (Copepoda: Calanoida) of Argentina', Biological Journal of the Linnean Society, vol. 90, no. 2, pp. 279-292
https://doi.org/10.1111/j.1095-8312.2007.00723.x
SCHMIDT, B. C., & SPERLING, F. A. H. (2008). Widespread decoupling of mtDNA variation and species integrity in Grammia tiger moths (Lepidoptera: Noctuidae). Systematic Entomology, 33(4), 613–634. Portico. https://doi.org/10.1111/j.1365-3113.2008.00433.x
https://doi.org/10.1111/j.1365-3113.2008.00433.x
SCOTT A. SCHAEFER, 1991, 'Phylogenetic analysis of the loricariid subfamily Hypoptopomatinae (Pisces: Siluroidei: Loricariidae), with comments on generic diagnoses and geographic distribution', Zoological Journal of the Linnean Society, vol. 102, no. 1, pp. 1-41
https://doi.org/10.1111/j.1096-3642.1991.tb01535.x
SHORT, A. E. Z., JOLY, L. J., GARCÍA, M., WILD, A. L., BLOOM, D. D., & MADDISON, D. R. (2015). Molecular phylogeny of the<scp>H</scp>ydroscaphidae (<scp>C</scp>oleoptera:<scp>M</scp>yxophaga) with description of a remarkable new lineage from the<scp>G</scp>uiana<scp>S</scp>hield. Systematic Entomology, 40(1), 214–229. Portico. https://doi.org/10.1111/syen.12097
https://doi.org/10.1111/syen.12097
SIHVONEN, P., STAUDE, H. S., & MUTANEN, M. (2015). Systematic position of the enigmatic African cycad moths: an integrative approach to a nearly century old problem (Lepidoptera: Geometridae, Diptychini). Systematic Entomology, 40(3), 606–627. Portico. https://doi.org/10.1111/syen.12125
https://doi.org/10.1111/syen.12125
SMITH, A. D. (2013). Phylogenetic revision of the<scp>N</scp>orth<scp>A</scp>merican<scp>A</scp>sidini (<scp>C</scp>oleoptera:<scp>T</scp>enebrionidae). Systematic Entomology, 38(3), 585–614. Portico. https://doi.org/10.1111/syen.12017
https://doi.org/10.1111/syen.12017
SOFIA V. PYATAEVA, RUSSELL R. HOPCROFT, DHUGAL J. LINDSAY, ALLEN G. COLLINS, 2016, 'DNA barcodes unite two problematic taxa: the meiobenthic Boreohydra simplex is a life-cycle stage of Plotocnide borealis (Hydrozoa: Aplanulata)', Zootaxa, vol. 4150, no. 1, p. 85
https://doi.org/10.11646/zootaxa.4150.1.5
SOHN, J., REGIER, J. C., MITTER, C., ADAMSKI, D., LANDRY, J., HEIKKILÄ, M., PARK, K., HARRISON, T., MITTER, K., ZWICK, A., KAWAHARA, A. Y., CHO, S., CUMMINGS, M. P., & SCHMITZ, P. (2015). Phylogeny and feeding trait evolution of the mega‐diverse Gelechioidea (Lepidoptera: Obtectomera): new insight from 19 nuclear genes. Systematic Entomology, 41(1), 112–132. Portico. https://doi.org/10.1111/syen.12143
https://doi.org/10.1111/syen.12143
SONG, H., SHEFFIELD, N. C., CAMERON, S. L., MILLER, K. B., & WHITING, M. F. (2010). When phylogenetic assumptions are violated: base compositional heterogeneity and among-site rate variation in beetle mitochondrial phylogenomics. Systematic Entomology, 35(3), 429–448. https://doi.org/10.1111/j.1365-3113.2009.00517.x
https://doi.org/10.1111/j.1365-3113.2009.00517.x
STAMPER, T., DAHLEM, G. A., COOKMAN, C., & DEBRY, R. W. (2012). Phylogenetic relationships of flesh flies in the subfamily Sarcophaginae based on three mtDNA fragments (Diptera: Sarcophagidae). Systematic Entomology, 38(1), 35–44. Portico. https://doi.org/10.1111/j.1365-3113.2012.00646.x
https://doi.org/10.1111/j.1365-3113.2012.00646.x
Sachs J.L., Skophammer R.G., Bansal N., & Stajich J.E. 2013. Evolutionary origins and diversification of proteobacterial mutualists. Proceedings of the Royal Society B: Biological Sciences, .
https://doi.org/10.1098/rspb.2013.2146
Sahar Khodami, J. Vaun McArthur, Leocadio Blanco-Bercial, Pedro Martinez Arbizu, 2017, 'Molecular Phylogeny and Revision of Copepod Orders (Crustacea: Copepoda)', Scientific Reports, vol. 7, no. 1
https://doi.org/10.1038/s41598-017-06656-4
Sahr T., Ammer H., Besl H., & Fischer M. 1999. Infrageneric classification of the boleticolous genus Sepedonium: species delimitation and phylogenetic relationships. Mycologia, 91(6): 935-943.
https://doi.org/10.2307/3761625
Salino A., Almeida T., Smith A., Navarro-gomez A., Kreier H., & Schneider H. 2007. A new species of Microgramma (Polypodiaceae) from Brazil and recircumscription of the genus based on phylogenetic evidence. Systematic Botany, 33(4), 630-635.
https://doi.org/10.1600/036364408786500208
Salter, J. F., Hosner, P. A., Tsai, W. L. E., McCormack, J. E., Braun, E. L., Kimball, R. T., Brumfield, R. T., & Faircloth, B. C. (2022). Historical specimens and the limits of subspecies phylogenomics in the New World quails (Odontophoridae). Molecular Phylogenetics and Evolution, 175, 107559. https://doi.org/10.1016/j.ympev.2022.107559
https://doi.org/10.1016/j.ympev.2022.107559
Salter, J. F., Oliveros, C. H., Hosner, P. A., Manthey, J. D., Robbins, M. B., Moyle, R. G., Brumfield, R. T., & Faircloth, B. C. (2020). Extensive paraphyly in the typical owl family (Strigidae). The Auk, 137(1). https://doi.org/10.1093/auk/ukz070
https://doi.org/10.1093/auk/ukz070
Samuels G., Dodd S., Gams W., Castlebury L., & Petrini O. 2002. Trichoderma species associated with the green mold epidemic of commercially grown Agaricus bisporus. Mycologia, 94(1): 146-170.
https://doi.org/10.2307/3761854
Sanchez, Adriana, and Kathleen A. Kron. "Phylogenetic Relationships of Triplaris and Ruprechtia: Re-Delimitation of the Recognized Genera and Two New Genera for Tribe Triplarideae (Polygonaceae)." Systematic Botany 36.3 (2011): 702-710.
https://doi.org/10.1600/036364411X583664
Sanchez-garcia M., Matheny P.B., Palfner G., & Lodge D.J. 2014. Deconstructing the Tricholomataceae (Agaricales) and introduction of the new genera Albomagister, Corneriella, Pogonoloma and Pseudotricholoma. Taxon, 63(5): 993-1007.
https://doi.org/10.12705/635.635.3
Sancho G. 2004. Phylogenetic relationships in the genus Onoseris (Asteraceae,Mutisieae) inferred from morphology. Systematic Botany, 29(2): 432-447.
https://doi.org/10.1600/036364404774195610
Sandoval-denis M.P., Gene J., Sutton D., Cano-lira J.F., De hoog G., Decock C., Wiederhold N.P., & Guarro J. 2016. Redefining Microascus, Scopulariopsis and allied genera. Persoonia: Molecular Phylogeny and Evolution of Fungi, 36: 1-36.
https://doi.org/10.3767/003158516X688027
Sandoval-leiva P., Mcdonald J.V., & Thorn R. 2016. Gymnopanella nothofagi, a new genus and species of gymnopoid fungi (Omphalotaceae) from Chilean Nothofagus forest. Mycologia, 108.
https://doi.org/10.3852/15-303
Sandra C. Craveiro, António J. Calado, Niels Daugbjerg, Gert Hansen, Øjvind Moestrup, 2011, 'Ultrastructure and LSU rDNA-based Phylogeny of Peridinium lomnickii and Description of Chimonodinium gen. nov. (Dinophyceae)', Protist, vol. 162, no. 4, pp. 590-615
https://doi.org/10.1016/j.protis.2011.03.003
Sangeet Lamichhaney, Jonas Berglund, Markus Sällman Almén, Khurram Maqbool, Manfred Grabherr, Alvaro Martinez-Barrio, Marta Promerová, Carl-Johan Rubin, Chao Wang, Neda Zamani, B. Rosemary Grant, Peter R. Grant, Matthew T. Webster, Leif Andersson, 2015, 'Evolution of Darwin’s finches and their beaks revealed by genome sequencing', Nature, vol. 518, no. 7539, pp. 371-375
https://doi.org/10.1038/nature14181
Santiago Herrera, Hiromi Watanabe, Timothy M. Shank, 2015, 'Evolutionary and biogeographical patterns of barnacles from deep-sea hydrothermal vents', Molecular Ecology, vol. 24, no. 3, pp. 673-689
https://doi.org/10.1111/mec.13054
Santiago Herrera, Timothy M. Shank, 2016, 'RAD sequencing enables unprecedented phylogenetic resolution and objective species delimitation in recalcitrant divergent taxa', Molecular Phylogenetics and Evolution, vol. 100, pp. 70-79
https://doi.org/10.1016/j.ympev.2016.03.010
Santini, Francesco, Laurie Sorenson, Michael E. Alfaro. 2013. A new phylogeny of tetraodontiform fishes (Tetraodontiformes, Acanthomorpha) based on 22 loci. Molecular Phylogenetics and Evolution 69 (1): 177-187.
https://doi.org/10.1016/j.ympev.2013.05.014
Sara Ruane, Christopher C. Austin, 2017, 'Phylogenomics using formalin-fixed and 100+ year old intractable natural history specimens', Molecular Ecology Resources
https://doi.org/10.1111/1755-0998.12655
Sarah J. Adamowicz, Silvina Menu-Marque, Stuart A. Halse, Janet C. Topan, Tyler S. Zemlak, Paul D.N. Hebert, Jonathan D.S. Witt, 2010, 'The evolutionary diversification of the Centropagidae (Crustacea, Calanoida): A history of habitat shifts', Molecular Phylogenetics and Evolution, vol. 55, no. 2, pp. 418-430
https://doi.org/10.1016/j.ympev.2009.12.008
Saslis-Lagoudakis, C., Chase, M. W., Robinson, D. N., Russell, S. J., & Klitgaard, B. B. (2008). Phylogenetics of neotropical Platymiscium (Leguminosae: Dalbergieae): systematics, divergence times, and biogeography inferred from nuclear ribosomal and plastid DNA sequence data. American Journal of Botany, 95(10), 1270-1286.
https://doi.org/10.3732/ajb.0800101
Satler, J. D., Herre, E. A., Jandér, K. C., Eaton, D. A. R., Machado, C. A., Heath, T. A., & Nason, J. D. (2019). Inferring processes of coevolutionary diversification in a community of Panamanian strangler figs and associated pollinating wasps*. Evolution, 73(11), 2295–2311. Portico. https://doi.org/10.1111/evo.13809
https://doi.org/10.1111/evo.13809
Sato, S. 2013. Morphology and life history of Amphora commutata (Bacillariophyta) I: The vegetative cell and phylogenetic position. Phycologia, 52(2).
https://doi.org/10.2216/12-072.1
Sato, S., Appeldorff, C., Wangensteen, O. S., Garcés-Pastor, S., Laumer, C. E., Herranz, M., Giribet, G., Renault, D., Rask Møller, P., & Worsaae, K. (2025). Phylogenomics of the rarest animals: a second species of Micrognathozoa identified by machine learning. Proceedings of the Royal Society B: Biological Sciences, 292(2041). https://doi.org/10.1098/rspb.2024.2867
https://doi.org/10.1098/rspb.2024.2867
Satoru Kaifuchi, Kenichi Nonaka, Mihoko Mori, Kazuro Shiomi, Satoshi Ōmura, Rokuro Masuma, 2013, 'Lecanicillium primulinum, a new hyphomycete (Cordycipitaceae) from soils in the Okinawa's main island and the Bonin Islands, Japan', Mycoscience, vol. 54, no. 4, pp. 291-296
https://doi.org/10.1016/j.myc.2012.10.006
Satoshi Eguchi, Minoru N. Tamura, 2016, 'Evolutionary timescale of monocots determined by the fossilized birth-death model using a large number of fossil records', Evolution, vol. 70, no. 5, pp. 1136-1144
https://doi.org/10.1111/evo.12911
Sauer, J., & Hausdorf, B. (2009). SEXUAL SELECTION IS INVOLVED IN SPECIATION IN A LAND SNAIL RADIATION ON CRETE. Evolution, 63(10), 2535–2546. https://doi.org/10.1111/j.1558-5646.2009.00751.x
https://doi.org/10.1111/j.1558-5646.2009.00751.x
Scauflaire J., Gourgue M., & Munaut F. 2011. Fusarium temperatum sp. nov. from maize, an emergent species closely related to Fusarium subglutinans. Mycologia, 103(3): 586-597.
https://doi.org/10.3852/10-135
Scharaschkin, T., & Doyle, J. A. (2005). Phylogeny and historical biogeography of Anaxagorea (Annonaceae) using morphology and non-coding chloroplast sequence data. Systematic Botany, 712-735.
https://doi.org/10.1600/036364405775097888
Schardl C., & Leuchtmann A. 1999. Three new species of Epichloë symbiotic with North American grasses. Mycologia, 91(1): 95-107.
https://doi.org/10.2307/3761196
Schardl C., Craven K., Speakman S., Stromberg A., Lindstrom A., & Yoshida R. 2008. A novel test for host-symbiont codivergence indicates ancient origin of fungal endophytes in grasses. Systematic Biology, 57(3): 483-498.
https://doi.org/10.1080/10635150802172184
Schenk, John J., Kevin C. Rowe, and Scott J. Steppan. 2013. Ecological opportunity and incumbency in the diversification of repeated continental colonizations by muroid rodents. Systematic Biology 62 (6): 837-864.
https://doi.org/10.1093/sysbio/syt050
Schield, D. R., Brown, C. E., Shakya, S. B., Calabrese, G. M., Safran, R. J., & Sheldon, F. H. (2024). Phylogeny and historical biogeography of the swallow family (Hirundinidae) inferred from comparisons of thousands of UCE loci. Molecular Phylogenetics and Evolution, 197, 108111. https://doi.org/10.1016/j.ympev.2024.108111
https://doi.org/10.1016/j.ympev.2024.108111
Schirrmeister, Bettina E, Alexandre Antonelli, Homayoun C Bagheri. 2011. The origin of multicellularity in cyanobacteria. BMC Evolutionary Biology 11 (1): 45.
https://doi.org/10.1186/1471-2148-11-45
Schnabel, K.E., S.T. Ahyong, E.W. Maas. 2010. Galatheoidea are not monophyletic – Molecular and morphological phylogeny of the squat lobsters (Decapoda: Anomura) with recognition of a new superfamily. Molecular Phylogenetics and Evolution 58 (2): 157-168.
https://doi.org/10.1016/j.ympev.2010.11.011
Schneider, H., Russell, S. J., Cox, C. J., Bakker, F., Henderson, S., Rumsey, F., ... & Vogel, J. C. (2004). Chloroplast phylogeny of asplenioid ferns based on rbcL and trnL-F spacer sequences (Polypodiidae, Aspleniaceae) and its implications for biogeography. Systematic Botany,29(2), 260-274.
https://doi.org/10.1600/036364404774195476
Schoville, S. D., Simon, S., Bai, M., Beethem, Z., Dudko, R. Y., Eberhard, M. J. B., Frandsen, P. B., Küpper, S. C., Machida, R., Verheij, M., Willadsen, P. C., Zhou, X., & Wipfler, B. (2020). Comparative transcriptomics of ice‐crawlers demonstrates cold specialization constrains niche evolution in a relict lineage. Evolutionary Applications, 14(2), 360–382. Portico. https://doi.org/10.1111/eva.13120
https://doi.org/10.1111/eva.13120
Schrire, B. D. [et al. 2009], Lavin, M., Barker, N. P., & Forest, F. 2009. Phylogeny of the tribe Indigofereae (Leguminosae-Papilionoideae): Geographically structured more in succulent-rich and temperate settings than in grass-rich environments. American J. Bot. 96: 816-852.
https://doi.org/10.3732/ajb.0800185
Schroers, H-J., M. M. Geldenhuis, Michael J. Wingfield, M. H. Schoeman, Y-F. Yen, W-C. Shen, and B. D. Wingfield. "Classification of the guava wilt fungus Myxosporium psidii, the palm pathogen Gliocladium vermoesenii and the persimmon wilt fungus Acremonium diospyri in Nalanthamala." Mycologia 97, no. 2 (2005): 375-395.
https://doi.org/10.3852/mycologia.97.2.375
Schuettpelz, E., & Hoot, S. B. (2006). Inferring the root of Isoëtes: exploring alternatives in the absence of an acceptable outgroup. Systematic Botany, 31(2), 258-270.
https://doi.org/10.1600/036364406777585856
Schultheis, L. M., & Donoghue, M. J. (2004). Molecular phylogeny and biogeography of Ribes (Grossulariaceae), with an emphasis on gooseberries (subg. Grossularia). Systematic botany, 29(1), 77-96.
https://doi.org/10.1600/036364404772974239
Schutte-Vlok, A. L., & Wyk, B. E. V. (2011). A Taxonomic Revision of Podalyria (Fabaceae). Systematic Botany, 36(3), 631-660.
https://doi.org/10.1600/036364411X583628
Schweizer, Manuel, Hadoram Shirihai. 2013. Phylogeny of the Oenanthe lugens complex (Aves, Muscicapidae: Saxicolinae): paraphyly of a morphologically cohesive group within a recent radiation of open-habitat chats. Molecular Phylogenetics and Evolution 69 (3): 450-461.
https://doi.org/10.1016/j.ympev.2013.08.010
Schweizer, Manuel, Marcel Güntert, Stefan T. Hertwig. 2012. Phylogeny and biogeography of the parrot genus Prioniturus (Aves: Psittaciformes). Journal of Zoological Systematics and Evolutionary Research 50 (2): 145-156.
https://doi.org/10.1111/j.1439-0469.2012.00654.x
Schweizer, Manuel, Timothy F. Wright, Joshua V. Peñalba, Erin E. Schirtzinger, Leo Joseph. 2015. Molecular phylogenetics suggests a New Guinean origin and frequent episodes of founder-event speciation in the nectarivorous lories and lorikeets (Aves: Psittaciformes). Molecular Phylogenetics and Evolution 90: 34-48.
https://doi.org/10.1016/j.ympev.2015.04.021
Schäferhoff, B. [et al. 2009], Müller, K. F., & Borsch, T. 2009. Caryophyllales phylogenetics: Disentangling Phytolaccaceae and Molluginaceae and description of Microteaceae as a new isolated family. Willdenowia 39: 209-228.
https://doi.org/10.3372/wi.39.39201
Schäferhoff, B., Fleischmann, A., Fischer, E., Albach, D. C., Borsch, T., Heubl, G., & Müller, K. F. (2010). Towards resolving Lamiales relationships: insights from rapidly evolving chloroplast sequences. BMC evolutionary biology, 10(1), 352.
https://doi.org/10.1186/1471-2148-10-352
Schönenberger, J. [et al. 2005], Anderberg, A. A., & Sytsma, K. J. 2005. Molecular phylogenetics and patterns of floral evolution in the Ericales. Internat. J. Plant Sci. 166: 265-288.
https://doi.org/10.1086/427198
Scofield, R. Paul, Kieren J. Mitchell, Jamie R. Wood, Vanesa L. De Pietri, Scott Jarvie, Bastien Llamas, Alan Cooper. 2016. The Origin and Phylogenetic Relationships of the New Zealand Ravens. Molecular Phylogenetics and Evolution 106: 136–143
https://doi.org/10.1016/j.ympev.2016.09.022
Scott, P. M., Burgess, T. I., Barber, P. A., Shearer, B. L., Stukely, M. J. C., Hardy, G. E. St. J., & Jung, T. (2009). <I>Phytophthora multivora</I> sp. nov., a new species recovered from declining <I>Eucalyptus</I>, <I>Banksia</I>, <I>Agonis</I> and other plant species in Western Australia. Persoonia - Molecular Phylogeny and Evolution of Fungi, 22(1), 1–13. https://doi.org/10.3767/003158509x415450
https://doi.org/10.3767/003158509x415450
Seberg, O., Petersen, G., Davis, J. I., Pires, J. C., Stevenson, D. W., Chase, M. W., Fay, M. F., Devey, D. S., Jørgensen, T., Sytsma, K. J., & Pillon, Y. 2012. Phylogeny of the Asparagales based on three plastid and two mitochondrial genes. American J. Bot. 99: 875-889.
https://doi.org/10.3732/ajb.1100468
Sede S.M., Durnhofer S.I., Morello S., & Zapata F. 2012. Phylogeny of Escallonia (Escalloniaceae) based on plastid DNA sequence data. Botanical Journal of the Linnean Society, .
No link provided! Try
Google Scholar or
CrossRef.org
Sede, S. M., Tosto, D., Talia, P., Luckow, M., Poggio, L., & Fortunato, R. (2009). Phylogenetic relationships among southern South American species of Camptosema, Galactia and Collaea (Diocleinae: Papilionoideae: Leguminosae) on the basis of molecular and morphological data. Australian Journal of Botany, 57(1), 76-86.
https://doi.org/10.1071/BT08091
Segata, Nicola, Daniela Börnigen, Xochitl C. Morgan, Curtis Huttenhower. 2013. PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes. Nature Communications 4: 2304.
https://doi.org/10.1038/ncomms3304
Seifert, Keith A., and Hillary Boulay. "Hirsutella uncinata, a new hyphomycete from Australia." Mycologia 96, no. 4 (2004): 929-934.
https://doi.org/10.2307/3762126
Sekimoto S., Rochon D., Long J.E., Dee J.M., & Berbee M. 2011. A multigene phylogeny of Olpidium and its implications for early fungal evolution. BMC Evolutionary Biology, .
https://doi.org/10.1186/1471-2148-11-331
Selvatti, Alexandre Pedro, Ana Galvão, Anieli Guirro Pereira, Luiz Pedreira Gonzaga, Claudia Augusta de Moraes Russo. 2016. An African origin of the Eurylaimides (Passeriformes) and the successful diversification of the ground-foraging pittas (Pittidae). Molecular Biology and Evolution, p. msw250
https://doi.org/10.1093/molbev/msw250
Selvatti, Alexandre Pedro, Luiz Pedreira Gonzaga, Claudia Augusta de Moraes Russo. 2015. A Paleogene origin for crown passerines and the diversification of the Oscines in the New World. Molecular Phylogenetics and Evolution 88: 1-15.
https://doi.org/10.1016/j.ympev.2015.03.018
Seo, B. Y., Park, J., Kwon, W., & Park, J. (2019). The complete mitochondrial genome of Aiolocaria hexaspilota (Hope, 1831) (Coleoptera:Coccinellidae). Mitochondrial DNA Part B, 4(1), 1472–1474. https://doi.org/10.1080/23802359.2019.1598828
https://doi.org/10.1080/23802359.2019.1598828
Seong-il Eyun, 2017, 'Phylogenomic analysis of Copepoda (Arthropoda, Crustacea) reveals unexpected similarities with earlier proposed morphological phylogenies', BMC Evolutionary Biology, vol. 17, no. 1
https://doi.org/10.1186/s12862-017-0883-5
Sereno P.C. 2010. "Taxonomy, cranial morphology, and relationships of parrot-beaked dinosaurs." In: , eds. New Perspectives on Horned Dinosaurs. pp. 21-58. Bloomington, University of Indiana Press.
No link provided! Try
Google Scholar or
CrossRef.org
Sessegolo C., Burlet N., & Haudry A.V. 2016. Strong phylogenetic inertia on genome size and transposable element content among 26 species of flies. Biology Letters, 12(8).
https://doi.org/10.1098/rsbl.2016.0407
Shakya, S. B., Fuchs, J., Pons, J.-M., & Sheldon, F. H. (2017). Tapping the woodpecker tree for evolutionary insight. Molecular Phylogenetics and Evolution, 116, 182–191. doi:10.1016/j.ympev.2017.09.005
https://doi.org/10.1016/j.ympev.2017.09.005
Shakya, S. B., Irham, M., Brady, M. L., Haryoko, T., Fitriana, Y. S., Johnson, O., Rahman, M. A., Robi, N. J., Moyle, R. G., Prawiradilaga, D. M., & Sheldon, F. H. (2020). Observations on the relationships of some Sundaic passerine taxa (Aves: Passeriformes) previously unavailable for molecular phylogenetic study. Journal of Ornithology, 161(3), 651–664. https://doi.org/10.1007/s10336-020-01766-9
https://doi.org/10.1007/s10336-020-01766-9
Shakya, Subir B., Frederick H. Sheldon. 2017. The phylogeny of the world's bulbuls (Pycnonotidae) inferred using a supermatrix approach. Ibis 159 (3): 498-509
https://doi.org/10.1111/ibi.12464
Shang-Yin Vanson Liu, Bruno Frédérich, Sébastien Lavoué, Jonathan Chang, Mark V. Erdmann, Gusti Ngurah Mahardika, Paul H. Barber, 2018, 'Buccal venom gland associates with increased of diversification rate in the fang blenny fish Meiacanthus (Blenniidae; Teleostei)', Molecular Phylogenetics and Evolution, vol. 125, pp. 138-146
https://doi.org/10.1016/j.ympev.2018.03.027
Shannon C.K. Straub, Michael J. Moore, Pamela S. Soltis, Douglas E. Soltis, Aaron Liston, Tatyana Livshultz, 2014, 'Phylogenetic signal detection from an ancient rapid radiation: Effects of noise reduction, long-branch attraction, and model selection in crown clade Apocynaceae', Molecular Phylogenetics and Evolution, vol. 80, pp. 169-185
https://doi.org/10.1016/j.ympev.2014.07.020
Shannon C.K. Straub, Michael J. Moore, Pamela S. Soltis, Douglas E. Soltis, Aaron Liston, Tatyana Livshultz, 2014, 'Phylogenetic signal detection from an ancient rapid radiation: Effects of noise reduction, long-branch attraction, and model selection in crown clade Apocynaceae', Molecular Phylogenetics and Evolution, vol. 80, pp. 169-185
DOI: https://doi.org/10.5061/dryad.ff749
Sharkey, M., Carpenter J., Vilhelmsen L., Heraty J., Hawks D., Dowling A.P., Schulmeister S., Murray D., Deans A., Ronquist F., Krogmann L., & Wheeler W. 2011. Phylogenetic relationships among superfamilies of Hymenoptera. Cladistics 28 (1): 80-112.
https://doi.org/10.1111/j.1096-0031.2011.00366.x
Shaw, A. J., Cox, C. J., Buck, W. R., Devos, N., Buchanan, A. M., Cave, L., Seppelt, R., Shaw, B., Larraín, J., Andrus, R., Greilhuber, J., & Temsch, E. M. (2010). Newly resolved relationships in an early land plant lineage: Bryophyta class Sphagnopsida (peat mosses). American Journal of Botany, 97(9), 1511–1531. Portico. https://doi.org/10.3732/ajb.1000055
https://doi.org/10.3732/ajb.1000055
Shayla Salzman, Heather E. Driscoll, Tanya Renner, Thiago André, Stacy Shen, Chelsea D. Specht, 2015, 'Spiraling into History: A Molecular Phylogeny and Investigation of Biogeographic Origins and Floral Evolution for the Genus <I>Costus</I>', Systematic Botany, vol. 40, no. 1, pp. 104-115
https://doi.org/10.1600/036364415x686404
Sheldon, Frederick H., Linda A. Whittingham, Robert G. Moyle, Beth Slikas, David W. Winkler. 2005. Phylogeny of swallows (Aves: Hirundinidae) estimated from nuclear and mitochondrial DNA sequences. Molecular Phylogenetics and Evolution 35 (1): 254-270.
https://doi.org/10.1016/j.ympev.2004.11.008
Shen, S.-Q., Cai, Y.-Y., Xu, K.-K., Chen, Q.-P., Cao, S.-S., Yu, D.-N., & Zhang, J.-Y. (2020). The complete mitochondrial genome of Pedetontus zhejiangensis (Microcoryphia: Machilidae) and its phylogeny. Mitochondrial DNA Part B, 5(3), 3143–3145. https://doi.org/10.1080/23802359.2020.1804472
https://doi.org/10.1080/23802359.2020.1804472
Shi, Jeff J., Daniel L. Rabosky. 2015. Speciation dynamics during the global radiation of extant bats. Evolution 69 (6): 1528-1545
https://doi.org/10.1111/evo.12681
Shih HT, Rahayu DL, Pramono FA. 2025. Integrative taxonomy uncovers four new species and one new record of land hermit crabs Coenobita Latreille, 1829 (Crustacea: Decapoda: Anomura: Coenobitidae) from Indonesia. Zool Stud 64:11. doi:10.6620/ZS.2025.64-11.
https://doi.org/10.6620/ZS.2025.64-11
Shin, N. R., Shin, S., Okamura, Y., Kirsch, R., Lombard, V., Svacha, P., Denux, O., Augustin, S., Henrissat, B., McKenna, D. D., & Pauchet, Y. (2021). Larvae of longhorned beetles (Coleoptera; Cerambycidae) have evolved a diverse and phylogenetically conserved array of plant cell wall degrading enzymes. Systematic Entomology, 46(4), 784–797. Portico. https://doi.org/10.1111/syen.12488
https://doi.org/10.1111/syen.12488
Shipham, Ashlee, Daniel J. Schmidt, Leo Joseph, Jane M. Hughes. 2015. Phylogenetic analysis of the Australian rosella parrots (Platycercus) reveals discordance among molecules and plumage. Molecular Phylogenetics and Evolution 91: 150-159.
https://doi.org/10.1016/j.ympev.2015.05.012
Shu-an J., Atterholt J., O'connor J.K., Lamanna M.C., Harris J.D., Da-qing L., Hai-lu Y., & Dodson P. 2011. A new, three-dimensionally preserved enantiornithine bird (Aves: Ornithothoraces) from Gansu Province, north-western China. Zoological Journal of the Linnean Society, 162(1): 201-219.
https://doi.org/10.1111/j.1096-3642.2010.00671.x
Shuhei Ota, Wenche Eikrem, Bente Edvardsen, 2012, 'Ultrastructure and Molecular Phylogeny of Thaumatomonads (Cercozoa) with Emphasis on Thaumatomastix salina from Oslofjorden, Norway', Protist, vol. 163, no. 4, pp. 560-573
https://doi.org/10.1016/j.protis.2011.10.007
Sidlauskas B.L. 2008. Phylogenetic relationships within the South American fish family Anostomidae (Teleostei, Ostariophysi, Characiformes). Zoological Journal of the Linnean Society, 154(1): 70-210.
https://doi.org/10.1111/j.1096-3642.2008.00407.x
Sikes, D.S., & Venables C. 2013. Molecular phylogeny of the burying beetles (Coleoptera: Silphidae: Nicrophorinae). Molecular Phylogenetics and Evolution 69 (3): 552-565.
https://doi.org/10.1016/j.ympev.2013.07.022
Silke Laakmann, Holger Auel, Marc Kochzius, 2012, 'Evolution in the deep sea: Biological traits, ecology and phylogenetics of pelagic copepods', Molecular Phylogenetics and Evolution, vol. 65, no. 2, pp. 535-546
https://doi.org/10.1016/j.ympev.2012.07.007
Silva, F. L. da, & Ferrington, L. C. (2018). Systematics of the new world genus Pentaneura Phillip (Diptera: Chironomidae: Tanypodinae): Historical review, new species and phylogeny. Zoologischer Anzeiger, 274, 60–89. https://doi.org/10.1016/j.jcz.2017.11.010
https://doi.org/10.1016/j.jcz.2017.11.010
Silva, F. L. da, de Medeiros, B. A. S., & Farrell, B. D. (2024). Once upon a fly: The biogeographical odyssey of Labrundinia (Chironomidae, Tanypodinae), an aquatic non-biting midge towards diversification. Molecular Phylogenetics and Evolution, 194, 108025. https://doi.org/10.1016/j.ympev.2024.108025
https://doi.org/10.1016/j.ympev.2024.108025
Simon, M. F. [et al. 2011], Grether, R., de Queiroz, L. P., Särkinen, T. E., Dutra, V. F., & Hughes, C. E. 2011. The evolutionary history of Mimosa (Leguminosae): Toward a phylogeny of the sensitive plants. American J. Bot. 98: 1201-1221.
https://doi.org/10.3732/ajb.1000520
Simon, S., Strauss S., Von haeseler A., & Hadrys H. 2009. A phylogenomic approach to resolve the basal pterygote divergence. Molecular Biology and Evolution 26 (12): 2719-2730.
https://doi.org/10.1093/molbev/msp191
Simone Treplin, Romy Siegert, Christoph Bleidorn, Hazell Shokellu Thompson, Roger Fotso, Ralph Tiedemann, 2008, 'Molecular phylogeny of songbirds (Aves: Passeriformes) and the relative utility of common nuclear marker loci', Cladistics, vol. 24, no. 3, pp. 328-349
https://doi.org/10.1111/j.1096-0031.2007.00178.x
Sinou, C., Cardinal‐McTeague, W., & Bruneau, A. (2020). Testing generic limits in Cercidoideae (Leguminosae): Insights from plastid and duplicated nuclear gene sequences. TAXON, 69(1), 67–86. doi:10.1002/tax.12207
https://doi.org/10.1002/tax.12207
Skovgaard K., Rosendahl S., O'donnell K., & Nirenberg H. 2003. Fusarium commune is a new species identified by morphological and molecular phylogenetic data. Mycologia, 95(4): 630-636.
https://doi.org/10.2307/3761939
Slager, David L., C.J. Battey, Robert W. Bryson, Gary Voelker, John Klicka. 2014. A multilocus phylogeny of a major New World avian radiation: The Vireonidae. Molecular Phylogenetics and Evolution 80: 95-104
https://doi.org/10.1016/j.ympev.2014.07.021
Sless, T., & Rehan, S. (2023). Phylogeny of the carpenter bees (Apidae: Xylocopinae) highlights repeated evolution of sociality. Biology Letters, 19(8). https://doi.org/10.1098/rsbl.2023.0252
https://doi.org/10.1098/rsbl.2023.0252
Slikas, Beth. 1997. Phylogeny of the avian family Ciconiidae (storks) based on cytochrome b sequences and DNA–DNA hybridization distances. Molecular Phylogenetics and Evolution 8 (3): 275-300.
https://doi.org/10.1006/mpev.1997.0431
Slippers, Bernard, Gerda Fourie, Pedro W. Crous, Teresa A. Coutinho, Brenda D. Wingfield, and Michael J. Wingfield. "Multiple gene sequences delimit Botryosphaeria australis sp. nov. from B. lutea." Mycologia 96, no. 5 (2004): 1030-1041.
https://doi.org/10.2307/3762087
Slippers, Bernard, Greg I. Johnson, Pedro W. Crous, Teresa A. Coutinho, Brenda D. Wingfield, and Michael J. Wingfield. "Phylogenetic and morphological re-evaluation of the Botryosphaeria species causing diseases of Mangifera indica." Mycologia 97, no. 1 (2005): 99-110.
https://doi.org/10.3852/mycologia.97.1.99
Smith J., & Sytsma K. 1994. Evolution in the Andean epiphytic genus Columnea (Gesneriaceae). II. Chloroplast DNA restriction site variation. Systematic Botany, 19: 317-336.
https://doi.org/10.2307/2419605
Smith, B. T., Merwin, J., Provost, K. L., Thom, G., Brumfield, R. T., Ferreira, M., Mauck, W. M., Moyle, R. G., Wright, T. F., & Joseph, L. (2022). Phylogenomic Analysis of the Parrots of the World Distinguishes Artifactual from Biological Sources of Gene Tree Discordance. Systematic Biology. https://doi.org/10.1093/sysbio/syac055
https://doi.org/10.1093/sysbio/syac055
Smith, Brian Tilston, Camila C. Ribas, Bret M. Whitney, Blanca E. HernÁndez-baÑos, John Klicka. 2012. Identifying biases at different spatial and temporal scales of diversification: a case study in the Neotropical parrotlet genus Forpus. Molecular Ecology 22 (2): 483-494.
https://doi.org/10.1111/mec.12118
Smith, Jason A., Kerry O'Donnell, Lacey L. Mount, Keumchul Shin, Kelly Peacock, Aaron Trulock, Tova Spector, Jenny Cruse-Sanders, and Ron Determann. "A novel Fusarium species causes a canker disease of the critically endangered conifer, Torreya taxifolia." Plant Disease 95, no. 6 (2011): 633-639.
https://doi.org/10.1094/PDIS-10-10-0703
Smith, S. M., & Cognato, A. I. (2022). New Non-native PseudocrypticCyclorhipidionSpecies (Coleoptera: Curculionidae: Scolytinae: Xyleborini) Found in the United States as Revealed in a Multigene Phylogeny. Insect Systematics and Diversity, 6(4). https://doi.org/10.1093/isd/ixac014
https://doi.org/10.1093/isd/ixac014
Smith, SA. 2009. Taking into account phylogenetic and divergence-time uncertainty in a parametric biogeographical analysis of the Northern Hemisphere plant clade Caprifolieae. Journal of Biogeography.
https://doi.org/10.1111/j.1365-2699.2009.02160.x
Smith, Stephen A., Nerida G. Wilson, Freya E. Goetz, Caitlin Feehery, Sónia C. S. Andrade, Greg W. Rouse, Gonzalo Giribet and Casey W. Dunn. 2011. Resolving the evolutionary relationships of molluscs with phylogenomic tools. Nature 480, 364–367.
https://doi.org/10.1038/nature10526
Soares, André E. R. , Ben J. Novak, James Haile, Tim H. Heupink, Jon Fjeldså, M. Thomas P. Gilbert, Hendrik Poinar, George M. Church, Beth Shapiro. 2016. Complete mitochondrial genomes of living and extinct pigeons revise the timing of the columbiform radiation. BMC Evolutionary Biology 16: 230
https://doi.org/10.1186/s12862-016-0800-3
Soares-Porto, L. M. 1998. Monophyly and interrelationships of the Centromochlinae (Siluriformes: Auchenipteridae). Pages 331-350 in Phylogeny and Classification of Neotropical Fishes (L. R. Malabarba, R. E. Reis, R. P. Vari, Z. M. S. Lucena, and C. A. S. Lucena, eds.). Edipucrs, Porto Alegre. ISBN 85-7430-035-7
https://books.google.com/books/about/Phylogeny_and_Classification_of_Neotropi.html?id=g0MWAQAAIAAJ
Soltis D., Smith S.A., Cellinese N., Wurdack K.J., Tank D.C., Brockington S.F., Refulio-rodriguez N., Walker J.B., Moore M.J., Carlsward B.S., Bell C., Latvis M., Crawley S., Black C., Diouf D., Xi Z., Rushworth C.A., Gitzendanner M.A., Sytsma K.J., Qiu Y., Hilu K., Davis C., Sanderson M.J., Beaman R.S., Olmstead R., Judd W., Donoghue M., & Soltis P. 2011. Angiosperm phylogeny: 17 genes, 640 taxa. American Journal of Botany, 98(4), 704-730.
https://doi.org/10.3732/ajb.1000404
Soltis, D. E., Mort, M. E., Latvis, M., Mavrodiev, E. V., O’Meara, B. C., Soltis, P. S., ... & de Casas, R. R. (2013). Phylogenetic relationships and character evolution analysis of Saxifragales using a supermatrix approach. American journal of botany, 100(5), 916-929.
https://doi.org/10.3732/ajb.1300044
Song, N., Li, X., Yin, X., Li, X., & Xi, Y. (2020). The mitochondrial genomes of ladybird beetles and implications for evolution and phylogeny. International Journal of Biological Macromolecules, 147, 1193–1203. https://doi.org/10.1016/j.ijbiomac.2019.10.089
https://doi.org/10.1016/j.ijbiomac.2019.10.089
Song, N., Li, X., Yin, X., Li, X., Yin, S., & Yang, M. (2020). The mitochondrial genome ofApion squamigerum(Coleoptera, Curculionoidea, Brentidae) and the phylogenetic implications. PeerJ, 8, e8386. Portico. https://doi.org/10.7717/peerj.8386
https://doi.org/10.7717/peerj.8386
Song, N., Yin, X., Zhao, X., Chen, J., & Yin, J. (2017). Reconstruction of mitogenomes by NGS and phylogenetic implications for leaf beetles. Mitochondrial DNA Part A, 29(7), 1041–1050. https://doi.org/10.1080/24701394.2017.1404044
https://doi.org/10.1080/24701394.2017.1404044
Soreng, R. J., Davis, J. I., & Voionomaa, M. A. 2007. A phylogenetic analysis of Poaceae tribe Poeae sensu lato based on morphological characters and sequence data from three plastid-encoded genes: Evidence for reticulation, and a new classification of the tribe. Kew Bull. 62: 425-454.
http://www.jstor.org/stable/20443368
Sosa-calvo J., Jesovnik A., Vasconcelos H.L., Bacci jr M., & Schultz T.R. 2017. Rediscovery of the enigmatic fungus-farming ant "Mycetosoritis" asper Mayr (Hymenoptera: Formicidae): Implications for taxonomy, phylogeny, and the evolution of agriculture in ants. PLoS ONE, 12(5): e0176498.
https://doi.org/10.1371/journal.pone.0176498
Souza E.R., Lewis G.P., Forest F., Schnadelbach A.S., Van den berg C., & Queiroz L.P. 2013. Phylogeny of Calliandra (Leguminosae: Mimosoideae) based on nuclear and plastid molecular markers. TAXON, 62(6): 1201-1220.
https://doi.org/10.12705/626.2
Souza, D. de S., French, R. L. K., Júnior, J. O. S., Nearns, E. H., Marinoni, L., Swift, I. P., Miller, K. B., Sperling, F. A. H., & Monné, M. L. (2024). Cutting the sap: First molecular phylogeny of twig‐girdler longhorn beetles (Coleoptera: Cerambycidae: Lamiinae: Onciderini) suggests shifts in host plant attack behaviours contributed to morphological evolution. Systematic Entomology, 50(2), 369–386. Portico. https://doi.org/10.1111/syen.12660
https://doi.org/10.1111/syen.12660
Soza, V. L., & Olmstead, R. G. (2010). Evolution of breeding systems and fruits in New World Galium and relatives (Rubiaceae). American journal of botany, 97(10), 1630-1646.
https://doi.org/10.3732/ajb.1000130
Soza, V. L., & Olmstead, R. G. (2010). Molecular systematics of tribe Rubieae (Rubiaceae): Evolution of major clades, development of leaf-like whorls, and biogeography. Taxon, 59(3), 755-771.
No link provided! Try
Google Scholar or
CrossRef.org
Soza, V. L., Brunet, J., Liston, A., Salles Smith, P., & Di Stilio, V. S. (2012). Phylogenetic insights into the correlates of dioecy in meadow-rues ( Thalictrum, Ranunculaceae). Molecular phylogenetics and evolution, 63(1), 180-192.
https://doi.org/10.1016/j.ympev.2012.01.009
Specht, C. D. 2006. Systematics and evolution the tropical monocot family Costaceae (Zingiberales): A multiple dataset approach. Syst. Bot. 31: 89-106.
https://doi.org/10.1600/036364406775971840
Spellman, GM, A Cibois, RG Moyle, K Winker, F Keith Barker. 2008. Clarifying the systematics of an enigmatic avian lineage: What is a bombycillid?. Molecular Phylogenetics and Evolution 49 (3): 1036-1040.
https://doi.org/10.1016/j.ympev.2008.09.006
Spinks P., Thomson R.C., Lovely G., & Bradley shaffer H. 2009. Assessing what is needed to resolve a molecular phylogeny: simulations and empirical data from Emydid turtles. BMC Evolutionary Biology, 9(56): 56.
https://doi.org/10.1186/1471-2148-9-56
Spinks, Phillip Q., Robert C. Thomson, Müge Gidiş, H. Bradley Shaffer. 2014. Multilocus phylogeny of the New-World mud turtles (Kinosternidae) supports the traditional classification of the group. Molecular Phylogenetics and Evolution
https://doi.org/10.1016/j.ympev.2014.03.025
Sprengelmeyer, Quentin D. "A phylogenetic reevaluation of the genus Gavia (Aves: Gaviiformes) using next-generation sequencing." (2014).
https://commons.nmu.edu/theses/1/
Springer, Mark S., Robert W. Meredith, John Gatesy, Christopher A. Emerling, Jong Park, Daniel L. Rabosky, Tanja Stadler, Cynthia Steiner, Oliver A. Ryder, Jan E. Janečka, Colleen A. Fisher, William J. Murphy. 2012. Macroevolutionary dynamics and historical biogeography of primate diversification inferred from a species supermatrix. PLoS ONE 7 (11): e49521.
https://doi.org/10.1371/journal.pone.0049521
Springer, Y. P. (2009). Do extreme environments provide a refuge from pathogens? A phylogenetic test using serpentine flax. American Journal of Botany, 96(11), 2010–2021. Portico. https://doi.org/10.3732/ajb.0900047
https://doi.org/10.3732/ajb.0900047
Stapel, H., Misof, B., & Wagner, T. (2008). A Molecular and Morphological Phylogenetic Analysis of Afrotropical Monolepta Species and Related Galerucinae (Coleoptera: Chrysomelidae). Arthropod Systematics & Phylogeny, 66(1), 3–17. https://doi.org/10.3897/asp.66.e31676
https://doi.org/10.3897/asp.66.e31676
Steele K., & Wojciechowski M. 2003. "Phylogenetic analyses of tribes Trifolieae and Vicieae based on sequences of the plastid gene matK (Papilionoideae: Leguminosae)." In: Klitgaard B., & Bruneau A., eds. Advances in Legume Systematics, part 10. pp. 355-370. London, Royal Botanic Gardens, Kew.
http://books.google.com/books?id=vbBaAAAACAAJ
Steeman, M., Hebsgaard M., Fordyce R., Ho S., Rabosky D., Nielsen R., Rahbek C., Glenner H., Sørensen M., & Willerslev E. 2009. Radiation of Extant Cetaceans Driven by Restructuring of the Oceans. Systematic Biology 58 (6): 573-585.
https://doi.org/10.1093/sysbio/syp060
Stefania Puce, Daniela Pica, Stefano Schiaparelli, Enrico Negrisolo, 2016, 'Integration of Morphological Data into Molecular Phylogenetic Analysis: Toward the Identikit of the Stylasterid Ancestor', PLOS ONE, vol. 11, no. 8, p. e0161423
https://doi.org/10.1371/journal.pone.0161423
Stefanovic, S. [et al. 2009], Pfeil, B. E., Palmer, J. D., & Doyle, J. J. 2009. Relationships Among Phaseoloid Legumes Based on Sequences from Eight Chloroplast Regions. Syst. Bot. 34: 115-128.
https://doi.org/10.1600/036364409787602221
Stein, R. W., Mull, C. G., Kuhn, T. S., Aschliman, N. C., Davidson, L. N. K., Joy, J. B., Smith, G. J., Dulvy, N. K., & Mooers, A. O. (2018). Global priorities for conserving the evolutionary history of sharks, rays and chimaeras. Nature Ecology & Evolution, 2(2), 288–298. https://doi.org/10.1038/s41559-017-0448-4
https://doi.org/10.1038/s41559-017-0448-4
Stein, R. Will, Joseph W. Brown, Arne Ø. Mooers. 2015. A molecular genetic time scale demonstrates Cretaceous origins and multiple diversification rate shifts within the order Galliformes (Aves). Molecular Phylogenetics and Evolution 92: 155-164
https://doi.org/10.1016/j.ympev.2015.06.005
Steiner U., Leibner S., Schardl C.L., Leuchtmann A., & Leistner E. 2011. Periglandula, a new fungal genus within the family Clavicipitaceae and its association with Convolvulaceae. Mycologia, 103(5): 1133-1145.
https://doi.org/10.3852/11-031
Stephen A. Smith, & Michael Donoghue. 2010. Combining historical biogeography with niche modeling in the Caprifolium clade of Lonicera (Caprifoliaceae, Dipsacales). Systematic Biology, 59(3): 322-341.
https://doi.org/10.1093/sysbio/syq011
Stern, D. B., Breinholt, J., Pedraza‐Lara, C., López‐Mejía, M., Owen, C. L., Bracken‐Grissom, H., Fetzner, J. W., & Crandall, K. A. (2017). Phylogenetic evidence from freshwater crayfishes that cave adaptation is not an evolutionary dead‐end. Evolution, 71(10), 2522–2532. Portico. https://doi.org/10.1111/evo.13326
https://doi.org/10.1111/evo.13326
Stern, S. R., Weese, T., & Bohs, L. A. (2010). Phylogenetic relationships in Solanum section Androceras (Solanaceae). Systematic botany, 35(4), 885-893.
https://doi.org/10.1600/036364410X539934
Stervander, M., Hansson, B., Olsson, U., Hulme, M. F., Ottosson, U., & Alström, P. (2020). Molecular Species Delimitation of Larks (Aves: Alaudidae), and Integrative Taxonomy of the Genus Calandrella, with the Description of a Range-Restricted African Relic Taxon. Diversity, 12(11), 428. https://doi.org/10.3390/d12110428
https://doi.org/10.3390/d12110428
Steven B. Cannon, Michael R. McKain, Alex Harkess, Matthew N. Nelson, Sudhansu Dash, Michael K. Deyholos, Yanhui Peng, Blake Joyce, Charles N. Stewart, Megan Rolf, Toni Kutchan, Xuemei Tan, Cui Chen, Yong Zhang, Eric Carpenter, Gane Ka-Shu Wong, Jeff J. Doyle, Jim Leebens-Mack, 2014, 'Multiple Polyploidy Events in the Early Radiation of Nodulating and Nonnodulating Legumes', Molecular Biology and Evolution, vol. 32, no. 1, pp. 193-210
https://doi.org/10.1093/molbev/msu296
Steven Poe, Adrián Nieto-montes de oca, Omar Torres-carvajal, Kevin De Queiroz, Julián A. Velasco, Brad Truett, Levi N. Gray, Mason J. Ryan, Gunther Köhler, Fernando Ayala-varela, Ian Latella, 2017, 'A Phylogenetic, Biogeographic, and Taxonomic study of all Extant Species of Anolis (Squamata; Iguanidae)', Systematic Biology, vol. 66, no. 5, pp. 663-697
https://doi.org/10.1093/sysbio/syx029
Stewart, Jane E., Mee-Sook Kim, Robert L. James, R. Kasten Dumroese, and Ned B. Klopfenstein. "Molecular characterization of Fusarium oxysporum and Fusarium commune isolates from a conifer nursery." Phytopathology 96, no. 10 (2006): 1124-1133.
https://doi.org/10.1094/PHYTO-96-1124
Stiller, J., Feng, S., Chowdhury, AA. et al. Complexity of avian evolution revealed by family-level genomes. Nature (2024). https://doi.org/10.1038/s41586-024-07323-1
https://doi.org/10.1038/s41586-024-07323-1
Stiller, J., Tilic, E., Rousset, V., Pleijel, F., & Rouse, G. W. (2020). Spaghetti to a Tree: A Robust Phylogeny for Terebelliformia (Annelida) Based on Transcriptomes, Molecular and Morphological Data. Biology, 9(4), 73. https://doi.org/10.3390/biology9040073
https://doi.org/10.3390/biology9040073
Stringer, D. N., King, R. A., Austin, A. D., & Guzik, M. T. (2025). An Elusive New Genus and Species of Subterranean Amphipod (Hadzioidea: Eriopisidae) from Barrow Island, Western Australia. Diversity, 17(2), 84. https://doi.org/10.3390/d17020084
https://doi.org/10.3390/d17020084
Struck, T.H., Paul C., Hill N., Hartmann S., Hösel C., Kube M., Lieb B., Meyer A., Tiedemann R., Purschke G., & Bleidorn C. 2011. Phylogenomic analyses unravel annelid evolution. Nature 471 (7336): 95-98.
https://doi.org/10.1038/nature09864
Struck, Torsten Hugo, Anja Golombek, Anne Weigert, Franziska Anni Franke, Wilfried Westheide, Günter Purschke, Christoph Bleidorn, Kenneth Michael Halanych. 2015. The evolution of annelids reveals two adaptive routes to the interstitial realm. Current Biology 25 (15): 1993-1999
https://doi.org/10.1016/j.cub.2015.06.007
Stuart V. Nielsen, Paul M. Oliver, 2017, '
Morphological and genetic evidence for a new karst specialist lizard from New Guinea (
Cyrtodactylus
: Gekkonidae)
', Royal Society Open Science, vol. 4, no. 11, p. 170781
https://doi.org/10.1098/rsos.170781
Sturaro M.J., Avila-pires T.C., & Rodrigues M.T. 2017. Molecular phylogenetic diversity in the widespread lizard <i>Cercosaura ocellata</i> (Reptilia: Gymnophthalmidae) in South America. Systematics and Biodiversity, .
https://doi.org/10.1080/14772000.2017.1284913
Su, Y. C. F., Chaowasku, T., & Saunders, R. M. K. (2010). An Extended Phylogeny of Pseuduvaria (Annonaceae) with Descriptions of Three New Species and a Reassessment of the Generic Status of Oreomitra. Systematic Botany, 35(1), 30–39. https://doi.org/10.1600/036364410790862533
https://doi.org/10.1600/036364410790862533
Su, Z.-H., Sasaki, A., Minami, H., & Ozaki, K. (2024). Arthropod Phylotranscriptomics With a Special Focus on the Basal Phylogeny of the Myriapoda. Genome Biology and Evolution, 16(9). https://doi.org/10.1093/gbe/evae189
https://doi.org/10.1093/gbe/evae189
Subramanian, S., G. Beans-Picon, S. K. Swaminathan, C. D. Millar, D. M. Lambert. 2013. Evidence for a recent origin of penguins. Biology Letters 9 (6): 20130748-20130748.
https://doi.org/10.1098/rsbl.2013.0748
Suh, Alexander, Linnéa Smeds, Hans Ellegren. 2015. The dynamics of incomplete lineage sorting across the ancient adaptive radiation of neoavian birds. PLOS Biology13 (8): e1002224
https://doi.org/10.1371/journal.pbio.1002224
Sulmann J.D., Drew B.T., Drummond C., Hayasaka E., & Sytsma K.J. 2013. Systematics, Biogeography, and Character Evolution of Sparganium (Typhaceae) ? Diversification of a Widespread, Aquatic Lineage. American Journal of Botany, 100(10): 2023?2039.
https://doi.org/10.3732/ajb.1300048
Sultana, Tahera, Jiyeon Kim, Sang-Hwa Lee, Hyerim Han, Sanghee Kim, Gi-Sik Min, Steven A Nadler, Joogn-Ki Park. 2013. Comparative analysis of complete mitochondrial genome sequences confirms independent origins of plant-parasitic nematodes. BMC Evolutionary Biology 13 (1): 12.
https://doi.org/10.1186/1471-2148-13-12
Sun, Y. [et al. 2012], Wang, A., Wan, D., Wang, Q., & Liu, J. 2012. Rapid radiation of Rheum (Polygonaceae) and parallel evolution of morphological traits. Mol. Phyl. Evol. 63: 150-158.
https://doi.org/10.1016/j.ympev.2012.01.002
Sun, Yanxia, Michael J. Moore, Shoujun Zhang, Pamela S. Soltis, Douglas E. Soltis, Tingting Zhao, Aiping Meng, Xiaodong Li, Jianqiang Li, Hengchang Wang. 2016. Phylogenomic and structural analyses of 18 complete plastomes across nearly all families of early-diverging eudicots, including an angiosperm-wide analysis of IR gene content evolution. Molecular Phylogenetics and Evolution 96: 93-101
https://doi.org/10.1016/j.ympev.2015.12.006
Sundue, M. A., Islam, M. B., & Ranker, T. A. (2010). Systematics of grammitid ferns (Polypodiaceae): using morphology and plastid sequence data to resolve the circumscriptions of Melpomene and the polyphyletic genera Lellingeria and Terpsichore. Systematic Botany, 35(4), 701-715.
https://doi.org/10.1600/036364410X539790
Sung G., Jr G., & Spatafora J. 2008. The oldest fossil evidence of animal parasitism by fungi supports a Cretaceous radiation of fungal-arthropod symbioses. Molecular Phylogenetics and Evolution, 49(2): 495-502.
https://doi.org/10.1016/j.ympev.2008.08.028
Sushma Reddy, 2008, 'Systematics and biogeography of the shrike-babblers (Pteruthius): Species limits, molecular phylogenetics, and diversification patterns across southern Asia', Molecular Phylogenetics and Evolution, vol. 47, no. 1, pp. 54-72
https://doi.org/10.1016/j.ympev.2008.01.014
Sutherland, L. N., Schnepp, K. E., Powell, G. S., & Bybee, S. M. (2021). Phylogenetic Placement of the Plesioclytini (Coleoptera: Cerambycidae: Cerambycinae). Diversity, 13(11), 597. https://doi.org/10.3390/d13110597
https://doi.org/10.3390/d13110597
Suvorov, A., Kim, B. Y., Wang, J., Armstrong, E. E., Peede, D., D’Agostino, E. R. R., Price, D. K., Waddell, P. J., Lang, M., Courtier-Orgogozo, V., David, J. R., Petrov, D., Matute, D. R., Schrider, D. R., & Comeault, A. A. (2022). Widespread introgression across a phylogeny of 155 Drosophila genomes. Current Biology, 32(1), 111-123.e5. https://doi.org/10.1016/j.cub.2021.10.052
https://doi.org/10.1016/j.cub.2021.10.052
Suárez-Santiago, V. N., Ortega, A., Peintner, U., & López-Flores, I. (2009). Study on Cortinarius subgenus Telamonia section Hydrocybe in Europe, with especial emphasis on Mediterranean taxa. Mycological Research, 113(10), 1070–1090. https://doi.org/10.1016/j.mycres.2009.07.006
https://doi.org/10.1016/j.mycres.2009.07.006
Svenson, G.J., & Whiting M. 2009. Reconstructing the origins of praying mantises (Dictyoptera, Mantodea): the roles of Gondwanan vicariance and morphological convergence. Cladistics 25 (5): 468-514.
https://doi.org/10.1111/j.1096-0031.2009.00263.x
Swain T.D., Strimaitis A.M., Reuter K.E., & Boudreau W. 2016. Toward integrative systematics of Anthozoa (Cnidaria): Evolution of form in the order Zoanthidea. Zoologica Scripta, .
https://doi.org/10.1111/zsc.12195
Sweet, Andrew D., Kevin P. Johnson. 2015. Patterns of diversification in small New World ground doves are consistent with major geologic events. The Auk 132 (1): 300-312.
https://doi.org/10.1642/auk-14-193.1
Swithers KS, Petrus AK, Secinaro MA, Nesbø CL, Gogarten JP, Noll KM, Butzin NC. 2012. Vitamin B12 synthesis and salvage pathways were acquired by horizontal gene transfer to the thermotogales. Genome Biology and Evolution 4 (8): 842-851.
https://doi.org/10.1093/gbe/evs057
Symmank, L., Samain, M. S., Smith, J. F., Pino, G., Stoll, A., Goetghebeur, P., ... & Wanke, S. (2011). The extraordinary journey of Peperomia subgenus Tildenia (Piperaceae): insights into diversification and colonization patterns from its cradle in Peru to the Trans‐Mexican Volcanic Belt. Journal of Biogeography, 38(12), 2337-2349.
https://doi.org/10.1111/j.1365-2699.2011.02586.x
Sánchez-Guillén, R. A., Ceccarelli, S., Villalobos, F., Neupane, S., Rivas-Torres, A., Sanmartín-Villar, I., ... & Cordero-Rivera, A. (2020). The evolutionary history of colour polymorphism in Ischnura damselflies (Odonata: Coenagrionidae). Odonatologica, 49(3-4), 333-370.
https://doi.org/10.5281/zenodo.4268559
Särkinen, Tiina , Lynn Bohs, Richard G. Olmstead, Sandra Knapp. 2013. A phylogenetic framework for evolutionary study of the nightshades (Solanaceae): a dated 1000-tip tree. BMC Evolutionary Biology 13: 214.
https://doi.org/10.1186/1471-2148-13-214
Sérgio L. Pereira, Anita Wajntal, 2008, 'The historical biogeography of Pteroglossus aracaris (Aves, Piciformes, Ramphastidae) based on Bayesian analysis of mitochondrial DNA sequences', Genetics and Molecular Biology, vol. 31, no. 4, pp. 964-973
https://doi.org/10.1590/s1415-47572008005000021
Sérgio N. Stampar, Maximiliano M. Maronna, Marcelo V. Kitahara, James D. Reimer, André C. Morandini, 2014, 'Fast-Evolving Mitochondrial DNA in Ceriantharia: A Reflection of Hexacorallia Paraphyly?', PLoS ONE, vol. 9, no. 1, p. e86612
https://doi.org/10.1371/journal.pone.0086612
T. H. Oakley, J. M. Wolfe, A. R. Lindgren, A. K. Zaharoff, 2012, 'Phylotranscriptomics to Bring the Understudied into the Fold: Monophyletic Ostracoda, Fossil Placement, and Pancrustacean Phylogeny', Molecular Biology and Evolution, vol. 30, no. 1, pp. 215-233
https://doi.org/10.1093/molbev/mss216
T. Sanjuan, J. Tabima, S. Restrepo, T. Laessoe, J. W. Spatafora, A. E. Franco-Molano, 2014, 'Entomopathogens of Amazonian stick insects and locusts are members of the Beauveria species complex (Cordyceps sensu stricto)', Mycologia, vol. 106, no. 2, pp. 260-275
https://doi.org/10.3852/106.2.260
T. Shirouzu, D. Hirose, F. Oberwinkler, N. Shimomura, N. Maekawa, S. Tokumasu, 2013. Combined molecular and morphological data for improving phylogenetic hypothesis in Dacrymycetes. Mycologia, vol. 105, no. 5, pp. 1110-1125
https://doi.org/10.3852/12-147
T. Yu. Mayor, N. G. Sheveleva, L. V. Sukhanova, O. A. Timoshkin, S. V. Kiril’chik, 2010, 'Molecular-phylogenetic analysis of cyclopoids (Copepoda: Cyclopoida) from Lake Baikal and its water catchment basin', Russian Journal of Genetics, vol. 46, no. 11, pp. 1373-1380
https://doi.org/10.1134/s102279541011013x
TIHELKA, E., GIACOMELLI, M., HUANG, D.-Y., PISANI, D., DONOGHUE, P. C. J., & CAI, C.-Y. (2020). Fleas are parasitic scorpionfliest; Palaeoentomology, 3(6), 641–653. https://doi.org/10.11646/palaeoentomology.3.6.16
https://doi.org/10.11646/palaeoentomology.3.6.16
TOUSSAINT, E. F. A., HENDRICH, L., ESCALONA, H. E., PORCH, N., & BALKE, M. (2016). Evolutionary history of a secondary terrestrial Australian diving beetle (Coleoptera, Dytiscidae) reveals a lineage of high morphological and ecological plasticity. Systematic Entomology, 41(3), 650–657. Portico. https://doi.org/10.1111/syen.12182
https://doi.org/10.1111/syen.12182
Tagliacollo, V. A., Tan, M., Reis, R. E., Gaia, R., Carrijo, V., Ranuzi, M., Craig, J. M., & Albert, J. S. (2024). Time-calibrated phylogeny of neotropical freshwater fishes. Frontiers in Bioinformatics, 4. https://doi.org/10.3389/fbinf.2024.1433995
https://doi.org/10.3389/fbinf.2024.1433995
Tainá C. Rocha, Fernando Sequeira, Alexandre Aleixo, Péricles S. Rêgo, Iracilda Sampaio, Horacio Schneider, Marcelo Vallinoto, 2015, 'Molecular phylogeny and diversification of a widespread Neotropical rainforest bird group: The Buff-throated Woodcreeper complex, Xiphorhynchus guttatus/susurrans (Aves: Dendrocolaptidae)', Molecular Phylogenetics and Evolution, vol. 85, pp. 131-140
https://doi.org/10.1016/j.ympev.2015.02.004
Takishita, K., Martin K., Komatsuzaki H., Yabuki A., Inagaki Y., Cepicka I., Smejkalova P., Silberman J.D., Hashimoto T., Roger A.J., and Simpson A.G. 2011. Multigene phylogenies of diverse Carpediemonas-like organisms identify the closest relatives of 'amitochondriate' diplomonads and retortamonads. Protist 163 (3): 344-355.
https://doi.org/10.1016/j.protis.2011.12.007
Takuma Fujii, James Davis Reimer, 2013, 'A new family of diminutive zooxanthellate zoanthids (Hexacorallia: Zoantharia)', Zoological Journal of the Linnean Society, vol. 169, no. 3, pp. 509-522
https://doi.org/10.1111/zoj.12075
Tanaka E. 2008. Molecular phylogenetic analysis of ergot fungi to presume the parasitic characteristics. Proceedings of the association for plant protection of hokuriku, 57.
No link provided! Try
Google Scholar or
CrossRef.org
Tank D., & Olmstead R. 2009. The evolutionary origin of a second radiation of annual Castilleja (Orobanchaceae) species in South America: the role of long distance dispersal and allopolyploidy. American Journal of Botany, 96: 1907-1921.
https://doi.org/10.3732/ajb.0800416
Tank, D., M. Donoghue. 2010. Phylogeny and phylogenetic nomenclature of the Campanulidae based on an expanded set of genes and taxa. Systematic Botany 35 (2): 425-441.
https://doi.org/10.1600/036364410791638306
Tarver, J. E., P. C. J. Donoghue, M. J. Benton. 2011. Is evolutionary history repeatedly rewritten in light of new fossil discoveries? Proceedings of the Royal Society B: Biological Sciences 278 (1705): 599-604.
https://doi.org/10.1098/rspb.2010.0663
Tate, J. A., Acosta, M. C., McDill, J., Moscone, E. A., Simpson, B. B., & Cocucci, A. A. (2009). Phylogeny and character evolution in Nierembergia (Solanaceae): Molecular, morphological, and cytogenetic evidence. Systematic Botany, 34(1), 198-206.
https://doi.org/10.1600/036364409787602249
Tavares V.D., Warsi O., Balseiro F., Mancina C., & Davalos L.M. 2018. Out of the Antilles: fossil phylogenies support reverse colonization of bats to South America. Journal of Biogeography, .
https://doi.org/10.1111/jbi.13175
Tavares, E.S., Baker A., Pereira S., & Miyaki C. 2006. Phylogenetic relationships and historical biogeography of neotropical parrots (Psittaciformes: Psittacidae: Arini) inferred from mitochondrial and nuclear DNA Sequences. Systematic Biology 55 (3): 454-470.
https://doi.org/10.1080/10635150600697390
Taylor, Andy FS, Alan E. Hills, Giampaolo Simonini, Ernst E. Both, and Ursula Eberhardt. "Detection of species within the< i> Xerocomus subtomentosus</i> complex in Europe using rDNA–ITS sequences." Mycological research 110, no. 3 (2006): 276-287.
https://doi.org/10.1016/j.mycres.2005.11.013
Tedford, Richard H.; Wang, Xiaoming; Taylor, Beryl E. (2009). Phylogenetic systematics of the North American fossil Caninae (Carnivora, Canidae). Bulletin of the American Museum of Natural History, no. 325. http://hdl.handle.net/2246/5999
Wang, Xiaoming; Tedford, Richard H.; Taylor, Beryl E. (1999). Phylogenetic systematics of the Borophaginae (Carnivora, Canidae). Bulletin of the American Museum of Natural History, no. 243. http://hdl.handle.net/2246/1588
Wang, Xiaoming (1994). Phylogenetic systematics of the Hesperocyoninae (Carnivora, Canidae). Bulletin of the American Museum of Natural History, no. 221. http://hdl.handle.net/2246/829
http://hdl.handle.net/2246/5999
Telleria, M. T., Dueñas, M., Melo, I., Hallenberg, N., & Martín, M. P. (2010). A re-evaluation of Hypochnicium (Polyporales) based on morphological and molecular characters. Mycologia, 102(6), 1426–1436. https://doi.org/10.3852/09-242
https://doi.org/10.3852/09-242
Testo, Weston, Michael Sundue. 2016. A 4000-species dataset provides new insight into the evolution of ferns. Molecular Phylogenetics and Evolution 105: 200-211
https://doi.org/10.1016/j.ympev.2016.09.003
Thais N.C. Vasconcelos, Carol E.B. Proença, Berhaman Ahmad, Daniel S. Aguilar, Reinaldo Aguilar, Bruno S. Amorim, Keron Campbell, Itayguara R. Costa, Plauto S. De-Carvalho, Jair E.Q. Faria, Augusto Giaretta, Pepijn W. Kooij, Duane F. Lima, Fiorella F. Mazine, Brigido Peguero, Gerhard Prenner, Matheus F. Santos, Julia Soewarto, Astrid Wingler, Eve J. Lucas, 2017, 'Myrteae phylogeny, calibration, biogeography and diversification patterns: Increased understanding in the most species rich tribe of Myrtaceae', Molecular Phylogenetics and Evolution, vol. 109, pp. 113-137
https://doi.org/10.1016/j.ympev.2017.01.002
Theriot E.C., Ashworth M., Nakov T., Ruck E.C., & Jansen R.K. 2015. Dissecting signal and noise in diatom chloroplast protein encoding genes with phylogenetic information profiling. Molecular Phylogenetics and Evolution, 89: 28-36.
https://doi.org/10.1016/j.ympev.2015.03.012
Thiago da Silva Paiva, Amanda Ferreira Cavalcante de Albuquerque, Bárbara do Nascimento Borges, Maria Lúcia Harada, 2014, 'Description and Phylogeny of Tetrakeronopsis silvanetoi gen. nov., sp. nov. (Hypotricha, Pseudokeronopsidae), a New Benthic Marine Ciliate from Brazil', PLoS ONE, vol. 9, no. 2, p. e88954
https://doi.org/10.1371/journal.pone.0088954
Thoma, R. F., & Williams, B. W. (2025). Cambarus ocoeensis, a new species of crayfish (Decapoda: Cambaridae) from the Ocoee River Basin of Tennessee, USA. Zootaxa, 5618(1), 106–118. https://doi.org/10.11646/zootaxa.5618.1.7
https://doi.org/10.11646/zootaxa.5618.1.7
Thoma, R., Hurt, C., Williams, C., & Withers, D. (2023). Insights on the evolution and conservation of Appalachian burrowing crayfishes, with the description of a new species ofCambarusErichson, 1846 (Decapoda: Astacidea: Cambaridae). Journal of Crustacean Biology, 43(1). https://doi.org/10.1093/jcbiol/ruac066
https://doi.org/10.1093/jcbiol/ruac066
Thomas B. Patterson, Thomas J. Givnish. 2002. Phylogeny, concerted convergence, and phylogenetic niche conservatism in the core Liliales: Insights from rbcL and ndhF sequence data. Evolution 56 (2): 233-252
https://doi.org/10.1111/j.0014-3820.2002.tb01334.x
Thompson R.S., Parish J.C., Maidment S.C., & Barrett P.M. 2011. Phylogeny of the ankylosaurian dinosaurs (Ornithischia: Thyreophora). Journal of Systematic Palaeontology, : 301-312.
https://doi.org/10.1080/14772019.2011.569091
Thomson, R. C., Spinks, P. Q., & Shaffer, H. B. (2021). A global phylogeny of turtles reveals a burst of climate-associated diversification on continental margins. Proceedings of the National Academy of Sciences, 118(7). https://doi.org/10.1073/pnas.2012215118
https://doi.org/10.1073/pnas.2012215118
Thongklang N., Nawaz R., Khalid A.N., Chen J., Hyde K.D., Zhao R., Parra L.A., Hanif M., Moinard M., & Callac P. 2014. Morphological and molecular characterization of three Agaricus species from tropical Asia (Pakistan, Thailand) reveals a new group in section Xanthodermatei. Mycologia 106.6 (2014): 1220-1232.
https://doi.org/10.3852/14-076
Thornhill, Andrew H., Simon Y.W. Ho, Carsten Külheim, Michael D. Crisp. 2015. Interpreting the modern distribution of Myrtaceae using a dated molecular phylogeny. Molecular Phylogenetics and Evolution 93: 29-43
https://doi.org/10.1016/j.ympev.2015.07.007
Tiago P. Carvalho, Mariangeles Arce H., Roberto E. Reis, Mark H. Sabaj, 2018, 'Molecular phylogeny of Banjo catfishes (Ostaryophisi: Siluriformes: Aspredinidae): A continental radiation in South American freshwaters', Molecular Phylogenetics and Evolution
https://doi.org/10.1016/j.ympev.2018.04.039
Tierney, S. M., Sanjur, O., Grajales, G. G., Santos, L. M., Bermingham, E., & Wcislo, W. T. (2011). Photic niche invasions: phylogenetic history of the dim-light foraging augochlorine bees (Halictidae). Proceedings of the Royal Society B: Biological Sciences, 279(1729), 794–803. https://doi.org/10.1098/rspb.2011.1355
https://doi.org/10.1098/rspb.2011.1355
Tietze, Dieter Thomas, Martin Päckert, Jochen Martens, Henriette Lehmann, Yue-Hua Sun. 2013. Complete phylogeny and historical biogeography of true rosefinches (Aves: Carpodacus) . Zoological Journal of the Linnean Society 169 (1): 215-234.
https://doi.org/10.1111/zoj.12057
Tippery N., & Les D. 2011. Phylogenetic relationships and morphological evolution in Nymphoides (Menyanthaceae). Systematic Botany, 36: 1101-1113.
https://doi.org/10.1600/036364411X605092
Tod W. Reeder, Ted M. Townsend, Daniel G. Mulcahy, Brice P. Noonan, Perry L. Wood, Jack W. Sites, John J. Wiens, 2015, 'Integrated Analyses Resolve Conflicts over Squamate Reptile Phylogeny and Reveal Unexpected Placements for Fossil Taxa', PLOS ONE, vol. 10, no. 3, p. e0118199
https://doi.org/10.1371/journal.pone.0118199
Toljagić O., Voje K.L., Matschiner M., Liow L., & Hansen T.F. 2017. Millions of Years Behind: Slow Adaptation of Ruminants to Grasslands. Systematic Biology, .
https://doi.org/10.1093/sysbio/syx059
Tomaszewska, W., Escalona, H. E., Hartley, D., Li, J., Wang, X., Li, H., Pang, H., Ślipiński, A., & Zwick, A. (2021). Phylogeny of true ladybird beetles (Coccinellidae: Coccinellini) reveals pervasive convergent evolution and a rapid Cenozoic radiation. Systematic Entomology, 46(3), 611–631. Portico. https://doi.org/10.1111/syen.12479
https://doi.org/10.1111/syen.12479
Tomaszewska, W., Szawaryn, K., & Arriaga-Varela, E. (2023). ‘Where is my family?’ Molecular and morphological data reveal the phylogenetic position and diversity of the enigmatic handsome fungus beetle genus Anamycetaea Strohecker, 1975 (Coleoptera, Coccinelloidea). Invertebrate Systematics, 37(4), 231–253. https://doi.org/10.1071/is22053
https://doi.org/10.1071/is22053
Tooley P., Goley E., Carras M., Frederick R., Weber E., & Kuldau G. 2000. Characterization of Claviceps species pathogenic on sorghum by sequence analysis of the beta-tubulin gene intron 3 region and EF-1 alpha gene intron 4. Mycologia, 93(3): 541-551.
https://doi.org/10.2307/3761739
Toon, A., Austin, J. J., Dolman, G., Pedler, L., & Joseph, L. (2012). Evolution of arid zone birds in Australia: Leapfrog distribution patterns and mesic-arid connections in quail-thrush (Cinclosoma, Cinclosomatidae). Molecular Phylogenetics and Evolution, 62(1), 286–295. https://doi.org/10.1016/j.ympev.2011.09.026
https://doi.org/10.1016/j.ympev.2011.09.026
Toon, A., Pérez‐Losada, M., Schweitzer, C. E., Feldmann, R. M., Carlson, M., & Crandall, K. A. (2010). Gondwanan radiation of the Southern Hemisphere crayfishes (Decapoda: Parastacidae): evidence from fossils and molecules. Journal of Biogeography 37 (12): 2275-2290.
https://doi.org/10.1111/j.1365-2699.2010.02374.x
Torres, Chris R, Lisa M Ogawa, Mark AF Gillingham, Brittney Ferrari, Marcel van Tuinen. 2014. A multi-locus inference of the evolutionary diversification of extant flamingos (Phoenicopteridae). BMC Evolutionary Biology 14 (1): 36.
https://doi.org/10.1186/1471-2148-14-36
Torres-Carvajal, O., Ii J., & Cadle J. 2005. Phylogenetic relationships of South American lizards of the genus Stenocercus (Squamata: Iguania): a new approach using a general mixture model for gene sequence data. Molecular Phylogenetics and Evolution 39 (1): 171-185.
https://doi.org/10.1016/j.ympev.2005.09.007
Torsten H. Struck, Günter Purschke, Kenneth M. Halanych, 2005, 'A scaleless scale worm: Molecular evidence for the phylogenetic placement ofPisione remota(Pisionidae, Annelida)Published in collaboration with the University of Bergen and the Institute of Marine Research, Norway, and the Marine Biological Laboratory, University of Copenhagen, Denmark', Marine Biology Research, vol. 1, no. 4, pp. 243-253
https://doi.org/10.1080/17451000500261951
Toussaint E.F., Condamine F., Hawlitschek O., Watts C., Porch N., Hendrich L., & Balke M. 2014. Unveiling the Diversification Dynamics of Australasian Predaceous Diving Beetles in the Cenozoic. Systematic Biology, .
https://doi.org/10.1093/sysbio/syu067
Toussaint, Emmanuel F. A., Lars Hendrich, Helena Shaverdo, Michael Balke. 2015. Mosaic patterns of diversification dynamics following the colonization of Melanesian islands. Scientific Reports 5: 16016
https://doi.org/10.1038/srep16016
Tripp, E. A., & McDade, L. A. (2012). New synonymies for Ruellia (Acanthaceae) of Costa Rica and notes on other neotropical species. Brittonia, 64(3), 305-317.
https://doi.org/10.1007/s12228-012-9244-2
Tronchet, F., Plunkett, G. M., Jérémie, J., & Lowry, P. P. (2005). Monophyly and major clades of Meryta (Araliaceae). Systematic botany, 30(3), 657-670.
https://doi.org/10.1600/0363644054782279
Tsang, L., Chan T., Ahyong S., & Chu K. 2011. Hermit to king, or hermit to all: Multiple transitions to crab-like forms from hermit crab ancestors. Systematic Biology 60 (5): 616-629.
https://doi.org/10.1093/sysbio/syr063
Tárcia Fernanda da Silva, Horacio Schneider, Iracilda Sampaio, Arturo Angulo, Marcelo Fulgêncio Guedes Brito, Alexandre Clistenes de Alcântara Santos, Jonas de Andrade Santos, Alfredo Carvalho-Filho, Simoni Santos, 2018, 'Phylogeny of the subfamily Stelliferinae suggests speciation in Ophioscion Gill, 1863 (Sciaenidae: Perciformes) in the western South Atlantic', Molecular Phylogenetics and Evolution, vol. 125, pp. 51-61
https://doi.org/10.1016/j.ympev.2018.03.025
Uematsu, K., Kutsukake, M., Shigenobu, S., Yang, M.-M., Shibao, H., & Fukatsu, T. (2022). Seasonal polyphenism underlies the origin of a sterile caste in aphids. https://doi.org/10.1101/2022.08.19.501651
https://doi.org/10.1101/2022.08.19.501651
Uit de Weerd, D. R., Robinson, D. G., & Rosenberg, G. (2016). Evolutionary and biogeographical history of the land snail family Urocoptidae (Gastropoda: Pulmonata) across the Caribbean region. Journal of Biogeography, 43(4), 763–777. doi:10.1111/jbi.12692
https://doi.org/10.1111/jbi.12692
Uit de Weerd, D.R., & Gittenberger E. 2005. Towards a monophyletic genus Albinaria: the first molecular study into the phylogenetic position of eastern Albinaria species. Zoological Journal of the Linnean Society 143 (4): 531-542.
https://doi.org/10.1111/j.1096-3642.2005.00154.x
Uit de weerd D., & Gittenberger E. 2004. Re-evaluating Carinigera: molecular data overturn the current classification within the clausiliid subfamily Alopiinae (Gastropoda, Pulmonata). Journal of Molluscan Studies, 70: 305-318.
https://doi.org/10.1093/mollus/70.4.305
Ulf S. Johansson, Jon Fjeldså, Rauri C.K. Bowie, 2008, 'Phylogenetic relationships within Passerida (Aves: Passeriformes): A review and a new molecular phylogeny based on three nuclear intron markers', Molecular Phylogenetics and Evolution, vol. 48, no. 3, pp. 858-876
https://doi.org/10.1016/j.ympev.2008.05.029
Ulf S. Johansson, Martin Irestedt, Yanhua Qu, Per G.P. Ericson, 2018, 'Phylogenetic relationships of rollers (Coraciidae) based on complete mitochondrial genomes and fifteen nuclear genes', Molecular Phylogenetics and Evolution, vol. 126, pp. 17-22
https://doi.org/10.1016/j.ympev.2018.03.030
Untereiner, Wendy A., James A. Scott, Françoise A. Naveau, Lynne Sigler, Jason Bachewich, and Andrea Angus. "The Ajellomycetaceae, a new family of vertebrate-associated Onygenales." Mycologia 96, no. 4 (2004): 812-821.
https://doi.org/10.2307/3762114
Uva, Vera , Martin Päckert, Alice Cibois, Luca Fumagalli, Alexandre Roulin. 2018. Comprehensive molecular phylogeny of barn owls and relatives (Family: Tytonidae), and their six major Pleistocene radiations. Molecular Phylogenetics and Evolution 125: 127-137.
https://doi.org/10.1016/j.ympev.2018.03.013
Uyeno, Teruya & Yabumoto, Yoshitaka. (2007). Origin of extant coelacanths.
https://www.researchgate.net/publication/257922614_Origin_of_extant_coelacanths
VEA, I. M., & GRIMALDI, D. A. (2012). Phylogeny of ensign scale insects (Hemiptera: Coccoidea: Ortheziidae) based on the morphology of Recent and fossil females. Systematic Entomology, 37(4), 758–783. Portico. https://doi.org/10.1111/j.1365-3113.2012.00638.x
https://doi.org/10.1111/j.1365-3113.2012.00638.x
VUJIĆ, A., RADENKOVIĆ, S., STåHLS, G., AČANSKI, J., STEFANOVIĆ, A., VESELIĆ, S., ANDRIĆ, A., & HAYAT, R. (2012). Systematics and taxonomy of theruficornisgroup of genusMerodonMeigen (Diptera: Syrphidae). Systematic Entomology, 37(3), 578–602. Portico. https://doi.org/10.1111/j.1365-3113.2012.00631.x
https://doi.org/10.1111/j.1365-3113.2012.00631.x
Vacelet, J. (2012). Treatise Online no. 49: Part E, Revised, Volume 4, Chapter 4C: Hypercalcified Extant Calcarea. Treatise Online, 0(0). https://doi.org/10.17161/to.v0i0.4323
https://doi.org/10.17161/to.v0i0.4323
Vaga, C. F., Quattrini, A. M., Galvão de Lossio e Seiblitz, I., Huang, D., Quek, Z. B. R., Stolarski, J., Cairns, S. D., & Kitahara, M. V. (2025). A global coral phylogeny reveals resilience and vulnerability through deep time. Nature. https://doi.org/10.1038/s41586-025-09615-6
https://doi.org/10.1038/s41586-025-09615-6
Vakati, V., Eyun, S., & Lee, W. (2019). Unraveling the intricate biodiversity of the benthic harpacticoid genus Nannopus (Copepoda, Harpacticoida, Nannopodidae) in Korean waters. Molecular Phylogenetics and Evolution, 130, 366–379. https://doi.org/10.1016/j.ympev.2018.10.004
https://doi.org/10.1016/j.ympev.2018.10.004
Van der Linde, K., Houle D., Spicer G.S., & Steppan S. 2010. A supermatrix-based molecular phylogeny of the family Drosophilidae. Genetics Research 92 (1): 25-38.
https://doi.org/10.1017/S001667231000008X
Van der niet T., Linder H., Bytebier B., & Bellstedt D. 2004. Molecular arkers reject monophyly of the subgenera of Satyrium (Orchidaceae). Systematic Botany,30(2):263-274
https://doi.org/10.1600/0363644054223530
Van poucke K., Monbaliu S., Munaut F., Heungens K., De saeger S., & Van hove F. 2012. Genetic diversity and mycotoxin production of Fusarium lactis species complex isolates from sweet pepper. International Journal of Food Microbiology, 153(1-2): 28-37.
https://doi.org/10.1016/j.ijfoodmicro.2011.10.011
Vanessa Terra,Flávia C. P. Garcia,Luciano P. de Queiroz,Michelle van der Bank,Joseph T. Miller, 2017, 'Phylogenetic Relationships in Senegalia (Leguminosae-Mimosoideae) Emphasizing the South American Lineages', Systematic Botany, vol. 42, no. 3, pp. 458-464
https://doi.org/10.1600/036364417x696122
Varela, C., Golightly, C., Timm, L. E., Wilkins, B., Frank, T., Fenolio, D., Collins, S. B., & Bracken-Grissom, H. D. (2021). DNA barcoding enhances large-scale biodiversity initiatives for deep-pelagic crustaceans within the Gulf of Mexico and adjacent waters. Journal of Crustacean Biology, 41(1). https://doi.org/10.1093/jcbiol/ruab005
https://doi.org/10.1093/jcbiol/ruab005
Vasconcelos, T. N. C., Alcantara, S., Andrino, C. O., Forest, F., Reginato, M., Simon, M. F., & Pirani, J. R. (2020). Fast diversification through a mosaic of evolutionary histories characterizes the endemic flora of ancient Neotropical mountains. Proceedings of the Royal Society B: Biological Sciences, 287(1923), 20192933. doi:10.1098/rspb.2019.2933
https://doi.org/10.1098/rspb.2019.2933
Vasilikopoulos, A., Balke, M., Kukowka, S., Pflug, J. M., Martin, S., Meusemann, K., Hendrich, L., Mayer, C., Maddison, D. R., Niehuis, O., Beutel, R. G., & Misof, B. (2021). Phylogenomic analyses clarify the pattern of evolution of Adephaga (Coleoptera) and highlight phylogenetic artefacts due to model misspecification and excessive data trimming. Systematic Entomology, 46(4), 991–1018. Portico. https://doi.org/10.1111/syen.12508
https://doi.org/10.1111/syen.12508
Vellinga E., De kok R., & Bruns T. 2003. Phylogeny and taxonomy of Macrolepiota (Agaricaceae). Mycologia, 95(3): 442-456.
https://doi.org/10.2307/3761886
Vera Regina Werner, Haywood Dail Laughinghouse IV, Marli Fátima Fiore, Célia Leite Sant'Anna, Caroline Hoff, Kleber Renan de Souza Santos, Emanuel Bruno Neuhaus, Renato José Reis Molica, Ricardo Yukio Honda, Ricardo Omar Echenique, 2012, 'Morphological and molecular studies of Sphaerospermopsis torques-reginae (Cyanobacteria, Nostocales) from South American water blooms', Phycologia, vol. 51, no. 2, pp. 228-238
https://doi.org/10.2216/11-32.1
Veronica Z. Radice, Andrea M. Quattrini, Vonda E. Wareham, Evan N. Edinger, Erik E. Cordes, 2016, 'Vertical water mass structure in the North Atlantic influences the bathymetric distribution of species in the deep-sea coral genus Paramuricea', Deep Sea Research Part I: Oceanographic Research Papers, vol. 116, pp. 253-263
https://doi.org/10.1016/j.dsr.2016.08.014
Viana, J. H., Roza, A. S., Vaz, S., Powell, G., & da Silveira, L. F. L. (2025). A new firefly genus from South America, with seven new species, a new combination, and notes on the phylogeny of Lampyrinae: Lucidotini (Coleoptera: Lampyridae). PeerJ, 13, e18967. Portico. https://doi.org/10.7717/peerj.18967
https://doi.org/10.7717/peerj.18967
Vianna, J. A., Fernandes, F. A. N., Frugone, M. J., Figueiró, H. V., Pertierra, L. R., Noll, D., … Bowie, R. C. K. (2020). Genome-wide analyses reveal drivers of penguin diversification. Proceedings of the National Academy of Sciences, 117(36), 22303–22310. doi:10.1073/pnas.2006659117
https://doi.org/10.1073/pnas.2006659117
Victor A. Tagliacollo, Maxwell J. Bernt, Jack M. Craig, Claudio Oliveira, James S. Albert, 2016, 'Model-based total evidence phylogeny of Neotropical electric knifefishes (Teleostei, Gymnotiformes)', Molecular Phylogenetics and Evolution, vol. 95, pp. 20-33
https://doi.org/10.1016/j.ympev.2015.11.007
Vidal-Russell, R., & Nickrent, D. L. 2008a. The first mistletoes: Origin of aerial parasitism in Santalales. Mol. Phyl. Evol. 47: 523-537.
https://doi.org/10.1016/j.ympev.2008.01.016
Videira S.I., Groenewald J.Z., Braun U., Shin H., & Crous P.W. 2016. All that glitters is not Ramularia. Studies in Mycology, 83: 49-163.
https://doi.org/10.1016/j.simyco.2016.06.001
Videira S.I., Groenewald J.Z., Kolecka A., Van haren L., Boekhout T., & Crous P.W. 2015. Elucidating the Ramularia eucalypti species complex. Persoonia: Molecular Phylogeny and Evolution of Fungi, 34: 50-64.
https://doi.org/10.3767/003158515X685670
Videira S.I., Groenewald J.Z., Nakashima C., Braun U., Barreto R.W., De wit P.J., & Crous P.W. 2017. Mycosphaerellaceae - Chaos or clarity?. Studies in Mycology , 87: 257-421.
https://doi.org/10.1016/j.simyco.2017.09.003
Villalta C., Jacobson D., & Taylor J. 2009. Three new phylogenetic and biological Neurospora species: N. hispaniola, N. metzenbergii, and N. perkinsii. Mycologia, 101: 777-789.
https://doi.org/10.3852/08-219
Villarreal, J. C., & Renner, S. S. (2012). Hornwort pyrenoids, carbon-concentrating structures, evolved and were lost at least five times during the last 100 million years. Proceedings of the National Academy of Sciences, 109(46), 18873-18878.
https://doi.org/10.1073/pnas.1213498109
Virtanen V. 2003. Phylogeny of the Bartramiaceae (Bryopsida) Based on Morphology and on rbcL, rps4, and trnL-trnF Sequence Data. The Bryologist, 106(2): 280-296.
https://doi.org/10.1639/0007-2745(2003)106[0280:POTBBB]2.0.CO;2
Visagie C., Roets F., & Jacobs K. 2009. A new species of Penicillium, P. ramulosum sp. nov., from the natural environment. Mycologia, 101(6): 888-895.
https://doi.org/10.3852/08-149
Vit Hubka, Alena Nováková, Miroslav Kolařík, Željko Jurjević, Stephen W. Peterson, 2015, 'Revision of Aspergillus section Flavipedes: seven new species and proposal of section Jani sect. nov.', Mycologia, vol. 107, no. 1, pp. 169-208
https://doi-org.www2.lib.ku.edu/10.3852/14-059
Vitek N.S., Danilov I.G., Nakajima Y., & Hirayama R. 2017. Redescription of the skull of Trionyx kyrgyzensis and improved phylogenetic taxon sampling of Cretaceous and Paleogene soft-shelled turtles (Trionychidae) of Asia, including the oldest crown trionychids. Journal of Systematic Palaeontology, .
https://doi.org/10.1080/14772019.2017.1283365
Voelker, G. (2002). Molecular phylogenetics and the historical biogeography of dippers (Cinclus). Ibis, 144(4), 577–584. https://doi.org/10.1046/j.1474-919x.2002.00084.x
https://doi.org/10.1046/j.1474-919x.2002.00084.x
Voelker, G., & Light J.E. 2011. Palaeoclimatic events, dispersal and migratory losses along the Afro-European axis as drivers of biogeographic distribution in Sylvia warblers. BMC Evolutionary Biology 11: 163.
https://doi.org/10.1186/1471-2148-11-163
Voglmayr H., Mayer V., Maschwitz U., Moog J., Djieto-lordon C., & Blatrix R. 2011. The diversity of ant-associated black yeasts: Insights into a newly discovered world of symbiotic interactions. Fungal Biology, 115(9): 1077-1091.
https://doi.org/10.1016/j.funbio.2010.11.006
Vojkovská, R., Horká, I., & Ďuriš, Z. (2020). Comparative morphology of crayfish mandibles, with insight into their evolution. Journal of Morphology, 281(3), 365–376. Portico. https://doi.org/10.1002/jmor.21104
https://doi.org/10.1002/jmor.21104
Volkmar, U., & Knoop, V. (2010). Introducing intron locus cox1i624 for phylogenetic analyses in bryophytes: on the issue of Takakia as sister genus to all other extant mosses. Journal of molecular evolution, 70(5), 506-518.
https://doi.org/10.1007/s00239-010-9348-9
VÍCTOR, J., & ZÚÑIGA, G. (2015). Phylogeny ofDendroctonusbark beetles (Coleoptera: Curculionidae: Scolytinae) inferred from morphological and molecular data. Systematic Entomology, 41(1), 162–177. Portico. https://doi.org/10.1111/syen.12149
https://doi.org/10.1111/syen.12149
Vázquez-López, M., Ramírez-Barrera, S. M., Terrones-Ramírez, A. K., Robles-Bello, S. M., Nieto-Montes de Oca, A., Ruegg, K., & Hernández-Baños, B. E. (2024). Biogeographic factors contributing to the diversification of Euphoniinae (Aves, Passeriformes, Fringillidae): a phylogenetic and ancestral areas analysis. ZooKeys, 1188, 169–195. https://doi.org/10.3897/zookeys.1188.107047
https://doi.org/10.3897/zookeys.1188.107047
Vélez-Zuazo, Ximena, Ingi Agnarsson. 2011. Shark tales: a molecular species-level phylogeny of sharks (Selachimorpha, Chondrichthyes). Molecular Phylogenetics and Evolution 58 (2): 207-217.
https://doi.org/10.1016/j.ympev.2010.11.018
W. James Cooper, Lydia L. Smith, Mark W. Westneat, 2009, 'Exploring the radiation of a diverse reef fish family: Phylogenetics of the damselfishes (Pomacentridae), with new classifications based on molecular analyses of all genera', Molecular Phylogenetics and Evolution, vol. 52, no. 1, pp. 1-16
https://doi.org/10.1016/j.ympev.2008.12.010
W. M. Jaklitsch, C. Lechat, H. Voglmayr, 2014, 'The rise and fall of Sarawakus (Hypocreaceae, Ascomycota)', Mycologia vol. 106 no. 1 133-144
https://doi.org/10.3852/13-117
W. M. Jaklitsch, G. J. Samuels, A. Ismaiel, H. Voglmayr, 2013, 'Disentangling the Trichoderma viridescens complex', Persoonia - Molecular Phylogeny and Evolution of Fungi, vol. 31, no. 1, pp. 112-146
https://doi.org/10.3767/003158513x672234
W. T. Beaulieu, D. G. Panaccione, K. L. Ryan, W. Kaonongbua, K. Clay, 2015, 'Phylogenetic and chemotypic diversity of Periglandula species in eight new morning glory hosts (Convolvulaceae)', Mycologia, vol. 107, no. 4, pp. 667-678
https://doi.org/10.3852/14-239
WAICHERT, C., VON DOHLEN, C. D., & PITTS, J. P. (2014). Resurrection, revision and molecular phylogenetics of Eragenia<scp>B</scp>anks with implications for <scp>A</scp>geniellini systematics (<scp>H</scp>ymenoptera: <scp>P</scp>ompilidae). Systematic Entomology, 40(2), 291–321. Portico. https://doi.org/10.1111/syen.12101
https://doi.org/10.1111/syen.12101
WARD, P. S. and FISHER, B. L. (2016), Tales of dracula ants: the evolutionary history of the ant subfamily Amblyoponinae (Hymenoptera: Formicidae). Syst Entomol, 41: 683-693.
https://doi.org/10.1111/syen.12186
WARE, J. L., LITMAN, J., KLASS, K., & SPEARMAN, L. A. (2008). Relationships among the major lineages of Dictyoptera: the effect of outgroup selection on dictyopteran tree topology. Systematic Entomology, 33(3), 429–450. Portico. https://doi.org/10.1111/j.1365-3113.2008.00424.x
https://doi.org/10.1111/j.1365-3113.2008.00424.x
WEIGT, L. A., CRAWFORD, A. J., RAND, A. S., & RYAN, M. J. (2005). Biogeography of the túngara frog, Physalaemus pustulosus: a molecular perspective. Molecular Ecology, 14(12), 3857–3876. https://doi.org/10.1111/j.1365-294x.2005.02707.x
https://doi.org/10.1111/j.1365-294x.2005.02707.x
WEIRAUCH, C. (2008). Cladistic analysis of Reduviidae (Heteroptera: Cimicomorpha) based on morphological characters. Systematic Entomology, 33(2), 229–274. Portico. https://doi.org/10.1111/j.1365-3113.2007.00417.x
https://doi.org/10.1111/j.1365-3113.2007.00417.x
WINTERTON, S. L., & WARE, J. L. (2015). Phylogeny, divergence times and biogeography of window flies (Scenopinidae) and the therevoid clade (Diptera: Asiloidea). Systematic Entomology, 40(3), 491–519. Portico. https://doi.org/10.1111/syen.12117
https://doi.org/10.1111/syen.12117
Waiho, K., Faznah, H., Shahreza, M.S.., Zaleha, K. (2013). Isolation and Characterization of Partial Mitochondrial CO1 Gene from Harpacticoid Copepod, Leptocaris canariensis (Lang, 1965). Academic Journal,12(50): 6901-6906
No link provided! Try
Google Scholar or
CrossRef.org
Wainwright, P.C., Smith W.L., Price S.A., Tang K.L., Sparks J.S., Ferry L.A., Kuhn K.L., Eytan R.I., & Near T.J. 2012. The evolution of pharyngognathy: a phylogenetic and functional appraisal of the pharyngeal jaw key innovation in labroid fishes and beyond. Systematic Biology 61 (6): 1001-1027.
https://doi.org/10.1093/sysbio/sys060
Walter Jetz, R. Alexander Pyron, 2018, 'The interplay of past diversification and evolutionary isolation with present imperilment across the amphibian tree of life', Nature Ecology & Evolution, vol. 2, no. 5, pp. 850-858
https://doi.org/10.1038/s41559-018-0515-5
Wang Minxiao, Sun Song, Li Chaolun, Shen Xin, 2011, 'Distinctive mitochondrial genome of Calanoid copepod Calanus sinicus with multiple large non-coding regions and reshuffled gene order: Useful molecular markers for phylogenetic and population studies', BMC Genomics, vol. 12, no. 1
https://doi.org/10.1186/1471-2164-12-73
Wang X., Lombard L., Groenewald J.Z., Li J., Videira S.I., Samson R., Liu X., & Crous P.W. 2016. Phylogenetic reassessment of the Chaetomium globosum species complex. Persoonia: Molecular Phylogeny and Evolution of Fungi, 36: 83-133.
https://doi.org/10.3767/003158516X689657
Wang Z., Binder M., & Hibbett D. 2002. A new species of Cudonia based on mophological and molecular data. Mycologia, 94(4): 641-650.
https://doi.org/10.2307/3761715
Wang, Hengchang, Michael J. Moore, Pamela S. Soltis, Charles D. Bell, Samuel F. Brockington, Roolse Alexandre, Charles C. Davis, Maribeth Latvis, Steven R. Manchester, and Douglas E. Soltis. 2009. Rosid radiation and the rapid rise of angiosperm-dominated forests. Proceedings of the National Academy of Sciences 106, no. 10 (March 10): 3853 -3858. doi:10.1073/pnas.0813376106.
https://doi.org/10.1073/pnas.0813376106
Wang, J., Dai, X.-Y., Xu, X.-D., Zhang, Z.-Y., Yu, D.-N., Storey, K. B., & Zhang, J.-Y. (2019). The complete mitochondrial genomes of five longicorn beetles (Coleoptera: Cerambycidae) and phylogenetic relationships within Cerambycidae. PeerJ, 7, e7633. Portico. https://doi.org/10.7717/peerj.7633
https://doi.org/10.7717/peerj.7633
Wang, J., Zhou, X., Dietrich, C. H., Cao, Y., & Huang, M. (2025). Extensive hybridisation and complex evolutionary history in the leafhopper genus Agnesiella (Hemiptera: Cicadellidae: Typhlocybinae). Systematic Entomology, 50(4), 903–919. Portico. https://doi.org/10.1111/syen.12686
https://doi.org/10.1111/syen.12686
Wang, Ning, Rebecca T. Kimball, Edward L. Braun, Bin Liang, Zhengwang Zhang. 2013. Assessing phylogenetic relationships among Galliformes: a multigene phylogeny with expanded taxon sampling in Phasianidae. PLoS ONE 8 (5): e64312.
https://doi.org/10.1371/journal.pone.0064312
Wang, Ning, Rebecca T. Kimball, Edward L. Braun, Bin Liang, Zhengwang Zhang. 2016. Ancestral range reconstruction of Galliformes: the effects of topology and taxon sampling. Journal of Biogeography
https://doi.org/10.1111/jbi.12782
Wang, P., Zhu, J., Wang, M., Zhang, Y., Wang, J., Zhu, Y., & Zhang, P. (2016). The complete mitochondrial genome of Reticulitermes labralis and implications for Rhinotermitidae taxonomy. Mitochondrial DNA Part B, 1(1), 392–393. https://doi.org/10.1080/23802359.2016.1174085
https://doi.org/10.1080/23802359.2016.1174085
Wang, W. [et al. 2012], Ortiz, R. D. C., Jacques, F. M. B., Xiang, X.-G., Li, H.-L., Lin, L., Li, R.-Q., Liu, Y., Soltis, P. S., Soltis, D. E. & Chen, Z.-D. 2012. Menispermaceae and the diversification of tropical rainforests near the Cretaceous-Paleogene boundary. New Phytol. 195: 470-478.
https://doi.org/10.1111/j.1469-8137.2012.04158.x
Wang, Wei, An-Ming Lu, Yi Ren, Mary E. Endress, Zhi-Duan Chen. 2009. 'Phylogeny and classification of Ranunculales: Evidence from four molecular loci and morphological data. Perspectives in Plant Ecology, Evolution and Systematics 11 (2): 81-110
https://doi.org/10.1016/j.ppees.2009.01.001
Wang, Y., Yang, X., Engel, M. S., Huo, Q., Du, Y.-Z., & Cai, C. (2025). Reconstructing the evolutionary history of stoneflies: phylogenetic insights and temporal dynamics. IScience, 113614. https://doi.org/10.1016/j.isci.2025.113614
https://doi.org/10.1016/j.isci.2025.113614
Wang, Y., Zhang, J., Lo, N., Bourguignon, T., Guo, L., Li, B., Che, Y., & Wang, Z. (2023). Phylogenetic analysis of Blaberoidea reveals non‐monophyly of taxa and supports the creation of multiple new subfamilies. Cladistics, 39(3), 198–214. Portico. https://doi.org/10.1111/cla.12535
https://doi.org/10.1111/cla.12535
Wang, Z., Shi, Y., Qiu, Z., Che, Y., & Lo, N. (2017). Reconstructing the phylogeny of Blattodea: robust support for interfamilial relationships and major clades. Scientific Reports, 7(1). https://doi.org/10.1038/s41598-017-04243-1
https://doi.org/10.1038/s41598-017-04243-1
Wang, Z., Wang, Z., Chen, X., Jiang, W., Cui, C., & Cui, L. (2025). Based on Mitochondrial Genomes and Gene Order Rearrangements: Phylogenetic Relationships and Terrestrial Adaptability in Paguroidea (Crustacea: Decapoda). Ecology and Evolution, 15(8). Portico. https://doi.org/10.1002/ece3.71975
https://doi.org/10.1002/ece3.71975
Wanntorp L., Kocyan A., & Renner S. 2006. Wax Plants Disentangled: A Phylogeny of Hoya (Asclepioideae, Apocynaceae) Inferred from Nuclear and Chloroplast Sequences. Molecular phylogenetics and evolution, 39(3), 722-733.
https://doi.org/10.1016/j.ympev.2006.01.022
Ward P.S., Brady S.G., Fisher B.L, and Schultz, T.R. 2015. The evolution of myrmicine ants: phylogeny and biogeography of a hyperdiverse ant clade (Hymenoptera: Formicidae). Syst Entomol, 40: 61-81.
https://doi.org/10.1111/syen.12090
Ward, P. S., Fisher, B. L., Wernegreen, J. J., & Blaimer, B. B. (2025). Evolutionary history, novel lineages and symbiont coevolution in the ant tribe Camponotini (Hymenoptera: Formicidae). Systematic Entomology, 50(3), 646–676. Portico. https://doi.org/10.1111/syen.12678
https://doi.org/10.1111/syen.12678
Wares, John P., M. Sabrina Pankey, Fabio Pitombo, Liza Gómez Daglio, Yair Achituv. 2009. A “shallow phylogeny” of shallow barnacles (Chthamalus). PLoS ONE 4 (5): e5567.
https://doi.org/10.1371/journal.pone.0005567
Watson, N., Duggan, I., & Hogg, I. (2015). Assessing the diversity of New Zealand freshwater harpacticoid copepods (Crustacea: Copepoda) using mitochondrial DNA (COI) barcodes. New Zealand Journal of Zoology, 42(2), 57–67. https://doi.org/10.1080/03014223.2015.1011592
https://doi.org/10.1080/03014223.2015.1011592
Wayne Maddison, Daiqin Li, Melissa Bodner, Junxia Zhang, Xu Xin, Qinqing Liu, Fengxiang Liu, 2014, 'The deep phylogeny of jumping spiders (Araneae, Salticidae)', ZooKeys, vol. 440, pp. 57-87
https://doi.org/10.3897/zookeys.440.7891
Wei Wang, Rosa Del C. Ortiz, Frédéric M.B. Jacques, Shih-Wen Chung, Yang Liu, Xiao-Guo Xiang, Zhi-Duan Chen, 2017, 'New insights into the phylogeny of Burasaieae (Menispermaceae) with the recognition of a new genus and emphasis on the southern Taiwanese and mainland Chinese disjunction', Molecular Phylogenetics and Evolution, vol. 109, pp. 11-20
https://doi.org/10.1016/j.ympev.2016.12.038
Wei X., Mccune B., Lumbsch H.T., Li H., Leavitt S., Yamamoto Y., Tchabanenko S., & Wei J. 2016. Limitations of Species Delimitation Based on Phylogenetic Analyses: A Case Study in the Hypogymnia hypotrypa Group (Parmeliaceae, Ascomycota). PLoS ONE, 11(11): e0163664.
https://doi.org/10.1371/journal.pone.0163664
Weigert, A., & Bleidorn, C. (2016). Current status of annelid phylogeny. Organisms Diversity & Evolution, 16(2), 345–362. doi:10.1007/s13127-016-0265-7
https://doi.org/10.1007/s13127-016-0265-7
Weigert, Anne, Conrad Helm, Matthias Meyer, Birgit Nickel, Detlev Arendt, Bernhard Hausdorf, Scott R. Santos, Kenneth M. Halanych, Gunter Purschke, Christoph Bleidorn, Torsten H. Struck. 2014. Illuminating the base of the Annelid tree using transcriptomics. Molecular Biology and Evolution 31 (6): 391-1401
https://doi.org/10.1093/molbev/msu080
Weimin Ye, Chow-Yang Lee, Rudolf H. Scheffrahn, Jody M. Aleong, Nan-Yao Su, Gary W. Bennett, Michael E. Scharf, 2004, 'Phylogenetic relationships of nearctic Reticulitermes species (Isoptera: Rhinotermitidae) with particular reference to Reticulitermes arenincola Goellner', Molecular Phylogenetics and Evolution, vol. 30, no. 3, pp. 815-822
https://doi.org/10.1016/s1055-7903(03)00230-6
Weir A., & Hughes M. 2002. The taxonomic status of Corethromyces bicolor from New Zealand, as inferred from morphological, developmental, and molecular studies. Mycologia, 94(3): 483-493.
https://doi.org/10.2307/3761782
Wheeler, E. J., Mashayekhi, S., McNeal, D. W., Columbus, J. T., & Pires, J. C. (2013). Molecular systematics of Allium subgenus Amerallium (Amaryllidaceae) in North America. American journal of botany, 100(4), 701-711.
https://doi.org/10.3732/ajb.1200641
Whelan, N. V., Kocot, K. M., Moroz, T. P., Mukherjee, K., Williams, P., Paulay, G., … Halanych, K. M. (2017). Ctenophore relationships and their placement as the sister group to all other animals. Nature Ecology & Evolution, 1(11), 1737–1746. doi:10.1038/s41559-017-0331-3
https://doi.org/10.1038/s41559-017-0331-3
White N.D., Barrowclough G.F., Groth J.G., & Braun M. 2016. A Multi-Gene Estimate of Higher-Level Phylogenetic Relationships Among Nightjars (Aves: Caprimulgidae). Ornitologia Neotropical, 27: 223-236.
No link provided! Try
Google Scholar or
CrossRef.org
White, N. D., & Braun, M. J. (2019). Extracting phylogenetic signal from phylogenomic data: Higher-level relationships of the nightbirds (Strisores). Molecular Phylogenetics and Evolution, 141, 106611. https://doi.org/10.1016/j.ympev.2019.106611
https://doi.org/10.1016/j.ympev.2019.106611
White, Nicole E., Matthew J. Phillips, M. Thomas P. Gilbert, Alonzo Alfaro-Núñez, Eske Willerslev, Peter R. Mawson, Peter B.S. Spencer, Michael Bunce. 2011. The evolutionary history of cockatoos (Aves: Psittaciformes: Cacatuidae). Molecular Phylogenetics and Evolution 59 (3): 615-622.
https://doi.org/10.1016/j.ympev.2011.03.011
Whiting, M. F. (2002). Mecoptera is paraphyletic: multiple genes and phylogeny of Mecoptera and Siphonaptera. Zoologica Scripta, 31(1), 93–104. Portico. https://doi.org/10.1046/j.0300-3256.2001.00095.x
https://doi.org/10.1046/j.0300-3256.2001.00095.x
Whitmore, D., Pape T., & Cerretti P. 2013. Phylogeny of Heteronychia: the largest lineage of Sarcophaga (Diptera: Sarcophagidae). Zoological Journal of the Linnean Society 169 (3): 604-639.
https://doi.org/10.1111/zoj.12070
Whitten, W. M., Blanco, M. A., Williams, N. H., Koehler, S., Carnevali, G., Singer, R. B., Endara, L., & Neubig, K. 2007. Molecular phylogenetics of Maxillaria and related genera (Orchidaceae: Cymbidieae) based on combined molecular data sets. American J. Bot. 94: 1860-1889.
https://doi.org/10.3732/ajb.94.11.1860
Whittingham, Linda A., Frederick H. Sheldon, Stephen T. Emlen. 2000. Molecular phylogeny of jacanas and its implications for morphologic and biogeographic evolution. The Auk 117 (1): 22-32.
https://doi.org/10.1642/0004-8038(2000)117[0022:mpojai]2.0.co;2
Wiegmann, B. M., M. D. Trautwein, I. S. Winkler, N. B. Barr, J.-W. Kim, C. Lambkin, M. A. Bertone, B. K. Cassel, K. M. Bayless, A. M. Heimberg, B. M. Wheeler, K. J. Peterson, T. Pape, B. J. Sinclair, J. H. Skevington, V. Blagoderov, J. Caravas, S. N. Kutty, U. Schmidt-Ott, G. E. Kampmeier, F. C. Thompson, D. A. Grimaldi, A. T. Beckenbach, G. W. Courtney, M. Friedrich, R. Meier, D. K. Yeates. 2011. Episodic radiations in the fly tree of life. Proceedings of the National Academy of Sciences. 108 (14): 5690-5695.
https://doi.org/10.1073/pnas.1012675108
Wiegmann, B., Trautwein M., Kim J., Bertone M., Winterton S., Cassel B., & Yeates D. 2009. Nuclear genes resolve the phylogeny of the holometabolous insects. BMC Biology 7(34): 34.
https://doi.org/10.1186/1741-7007-7-34
Wiemers, M., Chazot, N., Wheat, C., Schweiger, O., & Wahlberg, N. (2020). A complete time-calibrated multi-gene phylogeny of the European butterflies. ZooKeys, 938, 97–124. doi:10.3897/zookeys.938.50878
https://doi.org/10.3897/zookeys.938.50878
Wijnhorst, R. E., Janoo, I., Ferret, P., Tatayah, V., Probst, J.-M., Florens, F. B. V., & Warren, B. H. (2024). Phylogeny and Conservation Status of Mascarene Aerodramus Swiftlets. Ardea, 112(1). https://doi.org/10.5253/arde.2023.a9
https://doi.org/10.5253/arde.2023.a9
Wiklund, H., Glover A., & Dahlgren T. 2009. Three new species of Ophryotrocha (Annelida; Dorvilleidae) from a whale-fall in the North East Atlantic. Zootaxa 2228: 43-56.
No link provided! Try
Google Scholar or
CrossRef.org
Wikstrm N., Kenrick P., & Chase M. 1999. Epiphytism and terrestrialization in tropical Huperzia (Lycopodiaceae). Plant Systematics and Evolution, 218: 221-243.
https://doi.org/10.1007/BF01089229
Wilkie, P., Clark, A., Pennington, R. T., Cheek, M., Bayer, C., & Wilcock, C. C. (2006). Phylogenetic relationships within the subfamily Sterculioideae (Malvaceae/Sterculiaceae-Sterculieae) using the chloroplast gene ndhF. Systematic botany, 31(1), 160-170.
https://doi.org/10.1600/036364406775971714
Wilkin, P., Schols, P., Chase, M. W., Chayamarit, K., Furness, C. A., Huysmans, S., ... & Thapyai, C. (2005). A plastid gene phylogeny of the yam genus, Dioscorea: roots, fruits and Madagascar. Systematic Botany, 30(4), 736-749.
https://doi.org/10.1600/036364405775097879
William B. Ludt, Luiz A. Rocha, Mark V. Erdmann, Prosanta Chakrabarty, 2015, 'Skipping across the tropics: The evolutionary history of sawtail surgeonfishes (Acanthuridae: Prionurus)', Molecular Phylogenetics and Evolution, vol. 84, pp. 166-172
https://doi.org/10.1016/j.ympev.2014.12.017
William J.D. Iles, Chodon Sass, Laura Lagomarsino, Gracie Benson-Martin, Heather Driscoll, Chelsea D. Specht, 2016, 'The phylogeny of Heliconia (Heliconiaceae) and the evolution of floral presentation', Molecular Phylogenetics and Evolution
https://doi.org/10.1016/j.ympev.2016.12.001
Wilson G.D., & Edgecombe G. 2003. The Triassic isopod Protamphisopus wianamattensis (Chilton) and comparison with extant taxa (Crustacea, phreatoicidea). Journal of Paleontology, 77(3): 454-470.
https://www.jstor.org/stable/4094794
Wilson G.D., Shaik S., & Ranga reddy Y. 2015. A new species of Andhracoides Wilson & Ranga Reddy, 2011 (Crustacea, Isopoda, Hypsimetopidae) from Belum Cave, Andhra Pradesh, India, with a phylogenetic review of the family. Journal of Crustacean Biology, 35(2): 216-240.
https://doi.org/10.1163/1937240X-00002333
Wojciechowski M., Lavin M., & Sanderson M. 2004. A phylogeny of legumes (Leguminosae) based on analysis of the plastid matK gene resolves many well-supported subclades within the family. American Journal of Botany, 91: 1846-1862.
https://doi.org/10.3732/ajb.91.11.1846
Wojciechowski M., Sanderson M., & Hu J. 1999. Evidence on the Monophyly of Astragalus (Fabaceae) and its Major Subgroups Based on Nuclear Ribosomal DNA ITS and Chloroplast DNA trnL Intron Data. Systematic Botany, 24: 409-437.
https://doi.org/10.2307/2419698
Wojciechowski M., Sanderson M., Baldwin B.G., & Donoghue M. 1993. Monophyly of aneuploid Astragalus (Fabaceae): Evidence from nuclear ribosomal DNA internal transcribed spacer sequences. American Journal of Botany, 80: 711-722.
https://doi.org/10.2307/2445441
Wolfe, J. M., Breinholt, J. W., Crandall, K. A., Lemmon, A. R., Lemmon, E. M., Timm, L. E., Siddall, M. E., & Bracken-Grissom, H. D. (2019). A phylogenomic framework, evolutionary timeline and genomic resources for comparative studies of decapod crustaceans. Proceedings of the Royal Society B: Biological Sciences, 286(1901), 20190079. https://doi.org/10.1098/rspb.2019.0079
https://doi.org/10.1098/rspb.2019.0079
Won, H., Renner S. 2006. Dating dispersal and radiation in the gymnosperm Gnetum (Gnetales)—clock calibration when outgroup relationships are uncertain. Systematic Biology 55 (4): 610-622.
https://doi.org/10.1080/10635150600812619
Wood, Jamie R., Kieren J. Mitchell, R. Paul Scofield, Vanesa L. De Pietri, Nicolas J. Rawlence, Alan Cooper. 2016. Phylogenetic relationships and terrestrial adaptations of the extinct laughing owl, Sceloglaux albifacies (Aves: Strigidae). Zoological Journal of the Linnean Society
https://doi.org/10.1111/zoj.12483
Worthy T., Mitri M., Handley W.D., Lee M.S., Anderson A., & Sand C. 2016. Osteology Supports a Stem-Galliform Affinity for the Giant Extinct Flightless Bird Sylviornis neocaledoniae (Sylviornithidae, Galloanseres). PLoS ONE, 11(3): e0150871.
https://doi.org/10.1371/journal.pone.0150871
Wright, April M., Kathleen M. Lyons, Matthew C. Brandley, David M. Hillis. 2015. Which came first: The lizard or the egg? Robustness in phylogenetic reconstruction of ancestral states. Journal of Experimental Zoology Part B: Molecular and Developmental Evolution 324 (6): 504-516
https://doi.org/10.1002/jez.b.22642
Wright, T. F., E. E. Schirtzinger, T. Matsumoto, J. R. Eberhard, G. R. Graves, J. J. Sanchez, S. Capelli, H. Muller, J. Scharpegge, G. K. Chambers, R. C. Fleischer. 2008. A multilocus molecular phylogeny of the parrots (Psittaciformes): support for a Gondwanan origin during the Cretaceous. Molecular Biology and Evolution 25 (10): 2141-2156.
https://doi.org/10.1093/molbev/msn160
Wu, M., Qian, X., Qin, M., Tu, T., & Zhang, R. (2020). Characterization of the complete mitochondrial genome ofCaryopemon giganteusPic (Coleoptera: Chrysomelidae: Bruchinae). Mitochondrial DNA Part B, 5(1), 929–931. https://doi.org/10.1080/23802359.2020.1719927
https://doi.org/10.1080/23802359.2020.1719927
Wu, S., Rheindt, F. E., Zhang, J., Wang, J., Zhang, L., Quan, C., Li, Z., Wang, M., Wu, F., Qu, Y., Edwards, S. V., Zhou, Z., & Liu, L. (2024). Genomes, fossils, and the concurrent rise of modern birds and flowering plants in the Late Cretaceous. Proceedings of the National Academy of Sciences, 121(8). https://doi.org/10.1073/pnas.2319696121
https://doi.org/10.1073/pnas.2319696121
Wyth L. Marshall, Gail Celio, David J. McLaughlin, Mary L. Berbee, 2008, 'Multiple Isolations of a Culturable, Motile Ichthyosporean (Mesomycetozoa, Opisthokonta), Creolimax fragrantissima n. gen., n. sp., from Marine Invertebrate Digestive Tracts', Protist, vol. 159, no. 3, pp. 415-433
https://doi.org/10.1016/j.protis.2008.03.003
Xi, Z., Ruhfel, B. R., Schaefer, H., Amorim, A. M., Sugumaran, M., Wurdack, K. J., ... & Davis, C. C. (2012). Phylogenomics and a posteriori data partitioning resolve the Cretaceous angiosperm radiation Malpighiales. Proceedings of the National Academy of Sciences, 109(43), 17519-17524.
https://doi.org/10.1073/pnas.1205818109
Xia J.W., Ma Y.R., Gao J.M., Yang C.L., Wang J.Y., Li Z., & Zhang X.G. 2017. Acrodictys-like wood decay fungi from southern China, with two new families Acrodictyaceae and Junewangiaceae. Scientific Reports, 7: 7888.
https://doi.org/10.1038/s41598-017-08318-x
Xiang C., Gitzendanner M.A., Soltis D., Peng H., & Lei L. 2012. Phylogenetic placement of the enigmatic and critically endangered genus Saniculiphyllum (Saxifragaceae) inferred from combined analysis of plastid and nuclear DNA sequences. Molecular Phylogenetics and Evolution, 64: 357-367.
https://doi.org/10.1016/j.ympev.2012.04.010
Xiaolu Zhao, Shan Gao, Yangbo Fan, Michaela Strueder-Kypke, Jie Huang, 2015, 'Phylogenetic framework of the systematically confused Anteholosticha–Holosticha complex (Ciliophora, Hypotrichia) based on multigene analysis', Molecular Phylogenetics and Evolution, vol. 91, pp. 238-247
https://doi.org/10.1016/j.ympev.2015.05.021
Y. Franchesco Molina-Henao, Adriana L. Guerrero-Chacón, M. Alejandra Jaramillo, 2016, 'Ecological and Geographic Dimensions of Diversification in <I>Piper</I> subgenus <I>Ottonia</I>: A Lineage of Neotropical Rainforest Shrubs', Systematic Botany, vol. 41, no. 2, pp. 253-262
https://doi.org/10.1600/036364416x691777
Y. Yang, P. E. Berry. 2011. Phylogenetics of the Chamaesyce clade (Euphorbia, Euphorbiaceae): Reticulate evolution and long-distance dispersal in a prominent C4 lineage. American Journal of Botany 98(9):1486-1503.
https://doi.org/10.3732/ajb.1000496
Yan, K., Yanling, J., Xianghui, S., Lihui, Z., Wei, L., Hanshou, Y., & Zhiwei, W. (2009). Taxonomy ofNeotyphodiumendophytes of Chinese nativeRoegneriaplants. Mycologia, 101(2), 211–219. https://doi.org/10.3852/08-018
https://doi.org/10.3852/08-018
Yan-Jie Feng, David C. Blackburn, Dan Liang, David M. Hillis, David B. Wake, David C. Cannatella, Peng Zhang, 2017, 'Phylogenomics reveals rapid, simultaneous diversification of three major clades of Gondwanan frogs at the Cretaceous–Paleogene boundary', Proceedings of the National Academy of Sciences, p. 201704632
https://doi.org/10.1073/pnas.1704632114
Yanagida N., Irie T., Tanaka E., Teramoto C., Kuwabara K., & Tajimi A. 2005. New choke diseases and their molecular phylogenetic analysis in Agropyron ciliare var. minus and Agropyron tsukushiense var. transiens. Mycologia, 97: 1287-1291.
https://doi.org/10.3852/mycologia.97.6.1287
Yang EC, Boo SM, Bhattacharya D, Saunders GW, Knoll AH, Fredericq S, Graf L, Yoon HS. 2016. Divergence time estimates and the evolution of major lineages in the florideophyte red algae. Scientific Reports 6: 21361.
https://www.nature.com/articles/srep21361
Yang X., Copes W.E., & Hong C. 2014. Two novel species representing a new clade and cluster of Phytophthora. Fungal Biology , 118: 72-82.
https://doi.org/10.1016/j.funbio.2013.11.003
Yang Z., Matheny P., Ge Z., Slot J., & Hibbett D. 2005. New Asian species of the genus Anamika (euagarics, hebelomatoid clade) based on morphology and ribosomal DNA sequences. Mycological Research, 109: 1259-1267.
https://doi.org/10.1017/S0953756205003758
Yang, C. H., Bracken-Grissom, H., Kim, D., Crandall, K. A., & Chan, T. Y. (2012). Phylogenetic relationships, character evolution, and taxonomic implications within the slipper lobsters (Crustacea: Decapoda: Scyllaridae). Molecular Phylogenetics and Evolution 62 (1): 237-250.
https://doi.org/10.1016/j.ympev.2011.09.019
Yao, X., Song, Y., Yang, J., Tan, Y., & Corlett, R. T. (2020). Phylogeny and biogeography of the hollies (
Ilex
L., Aquifoliaceae). Journal of Systematics and Evolution. doi:10.1111/jse.12567
https://doi.org/10.1111/jse.12567
Yavorskaya, M. I., Anton, E., Jałoszyński, P., Polilov, A., & Beutel, R. G. (2018). Cephalic anatomy of Sphaeriusidae and a morphology‐based phylogeny of the suborder Myxophaga (Coleoptera). Systematic Entomology, 43(4), 777–797. Portico. https://doi.org/10.1111/syen.12304
https://doi.org/10.1111/syen.12304
Yesson C., & Culham A. 2006. Phyloclimatic Modeling: Combining Phylogenetics and Bioclimatic Modeling. Systematic Biology, 55(5): 785-802.
https://doi.org/10.1080/1063515060081570
Yi, T., Miller, A. J., & Wen, J. (2007). Phylogeny of Rhus (Anacardiaceae) based on sequences of nuclear Nia-i3 intron and chloroplast trnC-trnD. Systematic botany, 32(2), 379-391.
https://doi.org/10.1600/036364407781179635
Yokoyama, Eiji, Masao Arakawa, Kenzo Yamagishi, and Akira Hara. "Phylogenetic and structural analyses of the mating‐type loci in Clavicipitaceae." FEMS microbiology letters 264, no. 2 (2006): 182-191.
https://doi.org/10.1111/j.1574-6968.2006.00447.x
Yombiyeni P., & Decock C. 2017. Hymenochaetaceae (Hymenochaetales) from the Guineo-Congolian phytochorion: Phylloporia littoralis sp. nov. from coastal vegetation in Gabon and an identification key to the local species. Plant Ecology and Evolution, 150(2): 160-172.
https://doi.org/10.5091/plecevo.2017.1289
Yonezawa, T., Segawa, T., Mori, H., Campos, P. F., Hongoh, Y., Endo, H., Akiyoshi, A., Kohno, N., Nishida, S., Wu, J., Jin, H., Adachi, J., Kishino, H., Kurokawa, K., Nogi, Y., Tanabe, H., Mukoyama, H., Yoshida, K., Rasoamiaramanana, A., … Hasegawa, M. (2017). Phylogenomics and Morphology of Extinct Paleognaths Reveal the Origin and Evolution of the Ratites. Current Biology, 27(1), 68–77. https://doi.org/10.1016/j.cub.2016.10.029
https://doi.org/10.1016/j.cub.2016.10.029
Yoshiyuki Ishitani, Sohta A. Ishikawa, Yuji Inagaki, Masashi Tsuchiya, Kozo Takahashi, Kiyotaka Takishita, 2011, 'Multigene phylogenetic analyses including diverse radiolarian species support the “Retaria” hypothesis — The sister relationship of Radiolaria and Foraminifera', Marine Micropaleontology, vol. 81, no. 1-2, pp. 32-42
https://doi.org/10.1016/j.marmicro.2011.06.007
Younger, J. L., Block, N. L., Raherilalao, M. J., Maddox, J. D., Wacker, K. S., Kyriazis, C. C., Goodman, S. M., & Reddy, S. (2019). Diversification of a cryptic radiation, a closer look at Madagascar’s recently recognized bird family. https://doi.org/10.1101/825687
https://doi.org/10.1101/825687
Yu, D., Deharveng, L., Lukić, M., Wei, Y., Hu, F., & Liu, M. (2021). Molecular phylogeny and trait evolution in an ancient terrestrial arthropod lineage: Systematic revision and implications for ecological divergence (Collembola, Tomocerinae). Molecular Phylogenetics and Evolution, 154, 106995. https://doi.org/10.1016/j.ympev.2020.106995
https://doi.org/10.1016/j.ympev.2020.106995
Yuan, L., Ge, X., Xie, G., Liu, H., & Yang, Y. (2021). First Complete Mitochondrial Genome of Melyridae(Coleoptera, Cleroidea): Genome Description and Phylogenetic Implications. Insects, 12(2), 87. https://doi.org/10.3390/insects12020087
https://doi.org/10.3390/insects12020087
Yuan, L., Liu, H., Ge, X., Yang, G., Xie, G., & Yang, Y. (2022). A Mitochondrial Genome Phylogeny of Cleridae (Coleoptera, Cleroidea). Insects, 13(2), 118. https://doi.org/10.3390/insects13020118
https://doi.org/10.3390/insects13020118
Yuchi Zheng, John J. Wiens, 2016, 'Combining phylogenomic and supermatrix approaches, and a time-calibrated phylogeny for squamate reptiles (lizards and snakes) based on 52 genes and 4162 species', Molecular Phylogenetics and Evolution, vol. 94, pp. 537-547
https://doi.org/10.1016/j.ympev.2015.10.009
Yusa, Y., M. Yoshikawa, J. Kitaura, M. Kawane, Y. Ozaki, S. Yamato, J. T. Hoeg. 2012. Adaptive evolution of sexual systems in pedunculate barnacles. Proceedings of the Royal Society B Biological Sciences 279 (1730): 959-966.
https://doi.org/10.1098/rspb.2011.1554
ZWICK, A. (2008). Molecular phylogeny of Anthelidae and other bombycoid taxa (Lepidoptera: Bombycoidea). Systematic Entomology, 33(1), 190–209. Portico. https://doi.org/10.1111/j.1365-3113.2007.00410.x
https://doi.org/10.1111/j.1365-3113.2007.00410.x
Zanno L.E. 2010. A taxonomic and phylogenetic re-evaluation of Therizinosauria (Dinosauria: Maniraptora). Journal of Systematic Palaeontology, 8(4): 37-41.
https://doi.org/10.1080/14772019.2010.488045
Zhang F, Bellini BC, Soto-Adames FN (2019) New insights into the systematics of Entomobryoidea (Collembola: Entomobryomorpha): First instar chaetotaxy, homology and classification. Zoological Systematics, 44, 249-278.
https://doi.org/10.11865/zs.201926
Zhang S., Soltis D., Li D., Yang Y., & Yi T. 2011. Multi-gene analysis provides a well-supported phylogeny of Rosales. Molecular Phylogenetics and Evolution, 60(1): 21-8.
https://doi.org/10.1016/j.ympev.2011.04.008
Zhang X., Smith M.R., Yang J., & Hou J. 2016. Onychophoran-like musculature in a phosphatized Cambrian lobopodian. Biology Letters, .
https://doi.org/10.1098/rsbl.2016.0492
Zhang, F., Ma, Y., & Greenslade, P. (2017). New Australian Paronellidae (Collembola) reveal anomalies in existing tribal diagnoses. Invertebrate Systematics, 31(4), 375. https://doi.org/10.1071/is16073
https://doi.org/10.1071/is16073
Zhang, H., Song, N., & Yin, X. (2022). Higher-level phylogeny of Chrysomelidae based on expanded sampling of mitogenomes. PLOS ONE, 17(1), e0258587. https://doi.org/10.1371/journal.pone.0258587
https://doi.org/10.1371/journal.pone.0258587
Zhang, J., Lin, L., Mu, Y., Brelsford, A., & Purcell, J. (2025). A comparison of phylogenomic inference pipelines for low‐coverage whole‐genome sequencing in Formica ants. Systematic Entomology, 50(3), 611–629. Portico. https://doi.org/10.1111/syen.12670
https://doi.org/10.1111/syen.12670
Zhang, J., Zhou, C., Gai, Y., Song, D., & Zhou, K. (2008). The complete mitochondrial genome of Parafronurus youi (Insecta: Ephemeroptera) and phylogenetic position of the Ephemeroptera. Gene, 424(1–2), 18–24. https://doi.org/10.1016/j.gene.2008.07.037
https://doi.org/10.1016/j.gene.2008.07.037
Zhang, L. B., & Simmons, M. P. (2006). Phylogeny and delimitation of the Celastrales inferred from nuclear and plastid genes. Systematic Botany, 31(1), 122-137.
https://doi.org/10.1600/036364406775971778
Zhang, L., Li, Y., Ge, X., Li, X., Yang, Y., Bai, M., & Ge, S. (2022). Mitochondrial genomes of Sternochetus species (Coleoptera: Curculionidae) and the phylogenetic implications. Archives of Insect Biochemistry and Physiology, 111(1). Portico. https://doi.org/10.1002/arch.21898
https://doi.org/10.1002/arch.21898
Zhang, L.-J., Wu, L., Li, Y., Li, J.-G., Yang, X.-K., & Nie, R.-E. (2019). The complete mitochondrial genome of the seed-borer weevil, Bruchidius uberatus (Coleoptera: Chrysomelidae: Bruchinae). Mitochondrial DNA Part B, 5(1), 308–309. https://doi.org/10.1080/23802359.2019.1698331
https://doi.org/10.1080/23802359.2019.1698331
Zhang, R., Wang, L., Tian, S., Liu, Y., Jiang, Y., Zhou, X., Yang, D., Liu, X., & Wang, Y. (2025). Inconsistent performance of multi‐type genomic data in phylogenomics of neuropteridan insects, with solutions toward conflicting results. Systematic Entomology, 50(4), 855–875. Portico. https://doi.org/10.1111/syen.12684
https://doi.org/10.1111/syen.12684
Zhang, S., Shu, J., Wang, Y., Liu, Y., Peng, H., Zhang, W., & Wang, H. (2019). The complete mitochondrial genomes of two sibling species of camellia weevils (Coleoptera: Curculionidae) and patterns of Curculionini speciation. Scientific Reports, 9(1). https://doi.org/10.1038/s41598-019-39895-8
https://doi.org/10.1038/s41598-019-39895-8
Zhang, Y. M., Delvare, G., Blaimer, B. B., Cruaud, A., Rasplus, J., Brady, S. G., & Gates, M. W. (2025). Phasing in and out of phytophagy: Phylogeny and evolution of the family Eurytomidae (Hymenoptera: Chalcidoidea) based on Ultraconserved Elements. Systematic Entomology. Portico. https://doi.org/10.1111/syen.12682
https://doi.org/10.1111/syen.12682
Zhang, Z., Wang, X., Huang, Y., Olsson, U., Martinez, J., Alström, P., & Lei, F. (2016). Unexpected divergence and lack of divergence revealed in continental Asian Cyornis flycatchers (Aves: Muscicapidae). Molecular Phylogenetics and Evolution, 94, 232–241. https://doi.org/10.1016/j.ympev.2015.08.024
https://doi.org/10.1016/j.ympev.2015.08.024
Zhao R., Li G., S�nchez-ram�rez S., Stata M., Yang Z., Wu G., Dai Y.C., He S., Cui B., Zhou J., Wu F., He M., Moncalvo J., & Hyde K.D. 2017. A six-gene phylogenetic overview of Basidiomycota and allied phyla with estimated divergence times of higher taxa and a phyloproteomics perspective. Fungal Diversity, 84(1): 43-74.
https://doi.org/10.1007/s13225-017-0381-5
Zhao, C., Zhang, H., Liu, G., Yang, X., & Zhang, J. (2016). The complete mitochondrial genome of the Tibetan fox (Vulpes ferrilata) and implications for the phylogeny of Canidae. Comptes Rendus. Biologies, 339(2), 68–77. https://doi.org/10.1016/j.crvi.2015.11.005
https://doi.org/10.1016/j.crvi.2015.11.005
Zhao, M., Gordon Burleigh, J., Olsson, U., Alström, P., & Kimball, R. T. (2023). A near-complete and time-calibrated phylogeny of the Old World flycatchers, robins and chats (Aves, Muscicapidae). Molecular Phylogenetics and Evolution, 178, 107646. https://doi.org/10.1016/j.ympev.2022.107646
https://doi.org/10.1016/j.ympev.2022.107646
Zhao, M., Oswald, J. A., Allen, J. M., Owens, H. L., Hosner, P. A., Guralnick, R. P., Braun, E. L., & Kimball, R. T. (2025). A phylogenomic tree of wood-warblers (Aves: Parulidae): Dealing with good, bad, and ugly samples. Molecular Phylogenetics and Evolution, 202, 108235. https://doi.org/10.1016/j.ympev.2024.108235
https://doi.org/10.1016/j.ympev.2024.108235
Zhao, M., Thom, G., Faircloth, B. C., Andersen, M. J., Barker, F. K., Benz, B. W., Braun, M. J., Bravo, G. A., Brumfield, R. T., Chesser, R. T., Derryberry, E. P., Glenn, T. C., Harvey, M. G., Hosner, P. A., Imfeld, T. S., Joseph, L., Manthey, J. D., McCormack, J. E., McCullough, J. M., … Smith, B. T. (2025). Efficient Inference of Macrophylogenies: Insights from the Avian Tree of Life. Systematic Biology. https://doi.org/10.1093/sysbio/syaf080
https://doi.org/10.1093/sysbio/syaf080
Zheng, Y.-N., Gu, J.-J., He, Z.-Q., Huang, H., & Ma, L.-B. (2023). On a taxonomic feature that has been overestimated in classification practice: an integrative taxonomic revision of Stephoblemmus Saussure, 1877 based on morphology and molecular phylogeny (Orthoptera: Grylloidea; Gryllidae; Gryllinae). Arthropod Systematics & Phylogeny, 81, 761–779. https://doi.org/10.3897/asp.81.e104772
https://doi.org/10.3897/asp.81.e104772
Zhi-Yong Yuan, Wei-Wei Zhou, Xin Chen, Nikolay A. Poyarkov, Hong-Man Chen, Nian-Hong Jang-Liaw, Wen-Hao Chou, Nicholas J. Matzke, Koji Iizuka, Mi-Sook Min, Sergius L. Kuzmin, Ya-Ping Zhang, David C. Cannatella, David M. Hillis, Jing Che, 2016, 'Spatiotemporal Diversification of the True Frogs (Genus Rana): A Historical Framework for a Widely Studied Group of Model Organisms', Systematic Biology, p. syw055
https://doi.org/10.1093/sysbio/syw055
Zhou, Xiaoping, Chengte Yao, Qingxian Lin, Wenzhen Fang, Xiaolin Chen. 2015. Complete mitochondrial genomes render the Night Heron genus Gorsachius non-monophyletic. Journal of Ornithology 157 (2): 505-513
https://doi.org/10.1007/s10336-015-1297-z
Zimmermann, N. F. A. [et al. 2010], Ritz, C. M., & Hellwig, F. H. 2010. Further support for the phylogenetic relationships within Euphorbia L. (Euphorbiaceae) from nrITS and trnL-trnF IGS sequence data. Plant Syst. Evol. 286: 39-58.
https://doi.org/10.1007/s00606-010-0272-7
Zink, Robert M., Donna L. Dittmann, John Klicka, Rachelle C. Blackwell-Rago. 1999. Evolutionary patterns of morphometrics, allozymes, and mitochondrial DNA in thrashers (genus Toxostoma). The Auk 116 (4): 1021-1038
http://www.jstor.org/stable/4089682
Zink, Robert M., Rachelle C. Blackwell. 1998. Molecular systematics and biogeography of aridland gnatcatchers (genus Polioptila) and evidence supporting species status of the California gnatcatcher (Polioptila californica). Molecular Phylogenetics and Evolution 9 (1): 26-32
https://doi.org/10.1006/mpev.1997.0444
Zino, Francis, Ruth Brown, Manuel Biscoito. 2008. The separation of Pterodroma madeira (Zino's Petrel) from Pterodroma feae (Fea's Petrel) (Aves: Procellariidae). Ibis 150 (2): 326-334
https://doi.org/10.1111/j.1474-919x.2007.00794.x
Zuccon, Dario, Alice Cibois, Eric Pasquet, Per G.P. Ericson. 2006. Nuclear and mitochondrial sequence data reveal the major lineages of starlings, mynas and related taxa. Molecular Phylogenetics and Evolution 41 (2): 333-344
https://doi.org/10.1016/j.ympev.2006.05.007
Zuccon, Dario, Robert Prŷs-Jones, Pamela C. Rasmussen, and Per G.P. Ericson. 2012. The phylogenetic relationships and generic limits of finches (Fringillidae). Molecular Phylogenetics and Evolution 62 (2): 581-596.
https://doi.org/10.1016/j.ympev.2011.10.002
Zuntini, A.R., Carruthers, T., Maurin, O. et al. Phylogenomics and the rise of the angiosperms. Nature (2024). https://doi.org/10.1038/s41586-024-07324-0
https://doi.org/10.1038/s41586-024-07324-0
Zwiers, Paul B., Gerald Borgia, Robert C. Fleischer. 2008. Plumage based classification of the bowerbird genus Sericulus evaluated using a multi-gene, multi-genome analysis. Molecular Phylogenetics and Evolution 46 (3): 923-931
https://doi.org/10.1016/j.ympev.2007.11.019
da Silva, A. F., Machado, L. C., de Paula, M. B., da Silva Pessoa Vieira, C. J., de Morais Bronzoni, R. V., de Melo Santos, M. A. V., & Wallau, G. L. (2020). Culicidae evolutionary history focusing on the Culicinae subfamily based on mitochondrial phylogenomics. Scientific Reports, 10(1). https://doi.org/10.1038/s41598-020-74883-3
https://doi.org/10.1038/s41598-020-74883-3
de Abreu-Jr, E. F., Pavan, S. E., Tsuchiya, M. T. N., Wilson, D. E., Percequillo, A. R., & Maldonado, J. E. (2020). Museomics of tree squirrels: a dense taxon sampling of mitogenomes reveals hidden diversity, phenotypic convergence, and the need of a taxonomic overhaul. BMC Evolutionary Biology, 20(1). https://doi.org/10.1186/s12862-020-01639-y
https://doi.org/10.1186/s12862-020-01639-y
de Moya, R. S. (2022). Phylogenomics and host-switching patterns of Philopteridae (Psocodea: Phthiraptera) feather lice. International Journal for Parasitology, 52(8), 525–537. https://doi.org/10.1016/j.ijpara.2022.03.005
https://doi.org/10.1016/j.ijpara.2022.03.005
de Oliveira Furtado de Sousa, L., Wendt, T., Brown, G. K., Tuthill, D. E., & Evans, T. M. (2007). Monophyly and phylogenetic relationships in Lymania (Bromeliaceae: Bromelioideae) based on morphology and chloroplast DNA sequences. Systematic Botany, 32(2), 264-270.
https://doi.org/10.1600/036364407781179707
de Oliveira, J. V. L. C., & Zeppelini, D. (2024). A New Perspective to Oncopodura (Collembola: Oncopoduridae) Groups Based on Appendicular Morphology. Neotropical Entomology, 53(6), 1220–1259. https://doi.org/10.1007/s13744-024-01203-z
https://doi.org/10.1007/s13744-024-01203-z
de Paula, L. C. B., Dios, R. de V. P., Gudin, F. M., de Santis, M. D., Alvarez‐Garcia, D. M., Antunes Júnior, M., Freire, B. V., Marques, F. P. de L., Lahr, D. J. G., & Nihei, S. S. (2023). Phylogenomic analysis of Tachinidae (Diptera: Calyptratae: Oestroidea): a transcriptomic approach to understanding the subfamily relationships. Cladistics, 40(1), 64–81. Portico. https://doi.org/10.1111/cla.12562
https://doi.org/10.1111/cla.12562
de Santis, M. D., & Nihei, S. S. (2022). Phylogenetic analysis of the tribe Dufouriini (Diptera: Tachinidae) using a total evidence approach based on adult and immature stages. Arthropod Systematics & Phylogeny, 80, 1–38. https://doi.org/10.3897/asp.80.e69618
https://doi.org/10.3897/asp.80.e69618
den Tex, Robert-Jan, Jennifer A. Leonard. 2013. A molecular phylogeny of Asian barbets: speciation and extinction in the tropics. Molecular Phylogenetics and Evolution 68 (1): 1-13.
https://doi.org/10.1016/j.ympev.2013.03.004
dos Reis, Mario, Yuttapong Thawornwattana, Konstantinos Angelis, Maximilian J. Telford, Philip C.J. Donoghue, Ziheng Yang. 2015. Uncertainty in the timing of origin of animals and the limits of precision in molecular timescales. Current Biology
https://doi.org/10.1016/j.cub.2015.09.066
eBird Taxonomy draft, 2021, 2023
https://ebird.org/science/use-ebird-data/the-ebird-taxonomy
le Roux, M. M., & van Wyk, B. E. (2013). A Taxonomic Revision of Amphitrichae, a New Section of Crotalaria (Fabaceae). Systematic Botany, 38(3), 638-652.
No link provided! Try
Google Scholar or
CrossRef.org
von Rintelen K, Page TJ, Cai Y, Roe K, Stelbrink B, Kuhajda BR, Iliffe TM, Hughes J, von Rintelen T. 2012. Drawn to the dark side: a molecular phylogeny of freshwater shrimps (Crustacea: Decapoda: Caridea: Atyidae) reveals frequent cave invasions and challenges current taxonomic hypotheses. Mol Phylogenet Evol. 2012 Apr;63(1):82-96.
https://doi.org/10.1016/j.ympev.2011.12.015
von Rintelen, Kristina, Thomas von Rintelen, and Matthias Glaubrecht. 2007. Molecular phylogeny and diversification of freshwater shrimps (Decapoda, Atyidae, Caridina) from ancient Lake Poso (Sulawesi, Indonesia) — the importance of being colourful. Molecular Phylogenetics and Evolution 45 (3): 1033-1041.
https://doi.org/10.1016/j.ympev.2007.07.002
Ç ıplak, B. (2000). Systematics and phylogeny of Parapholidoptera (Orthoptera: Tettigoniidae: Tettigoniinae). Systematic Entomology, 25(4), 411–436. Portico. https://doi.org/10.1111/j.1365-3113.2000.00112.x
https://doi.org/10.1111/j.1365-3113.2000.00112.x
Õunap, E., Nedumpally, V., Yapar, E., Lemmon, A. R., & Tammaru, T. (2024). Molecular phylogeny of north European Geometridae (Lepidoptera: Geometroidea). Systematic Entomology, 50(1), 32–67. Portico. https://doi.org/10.1111/syen.12638
https://doi.org/10.1111/syen.12638
Černý, D., & Natale, R. (2022). Comprehensive taxon sampling and vetted fossils help clarify the time tree of shorebirds (Aves, Charadriiformes). Molecular Phylogenetics and Evolution, 177, 107620. https://doi.org/10.1016/j.ympev.2022.107620
https://doi.org/10.1016/j.ympev.2022.107620
Čkrkić, J., Petrović, A., Kocić, K., Mitrović, M., Kavallieratos, N. G., van Achterberg, C., Hebert, P. D. N., & Tomanović, Ž. (2020). Phylogeny of the Subtribe Monoctonina (Hymenoptera, Braconidae, Aphidiinae). Insects, 11(3), 160. https://doi.org/10.3390/insects11030160
https://doi.org/10.3390/insects11030160
ŚLIPIŃSKI, A., TOMASZEWSKA, W., & LAWRENCE, J. F. (2009). Phylogeny and classification of Corylophidae (Coleoptera: Cucujoidea) with descriptions of new genera and larvae. Systematic Entomology, 34(3), 409–433. Portico. https://doi.org/10.1111/j.1365-3113.2009.00471.x
https://doi.org/10.1111/j.1365-3113.2009.00471.x
