To name or not to name: Criteria to promote economy of change in Linnaean classification schemes

Zootaxa

Volumn 3636, Issue 2, 2013, Pages 201-244

  Vences, Miguel ^a   Guayasamin, Juan M ^b   Miralles, Aurélien ^a,c   De La Riva, Ignacio ^d  

^a TECHNICAL UNIVERSITY OF BRAUNSCHWEIG   (Germany)

^b UNIVERSIDAD TECNOLÓGICA INDOAMÉRICA   (Ecuador)

^c CENTRE D ECOLOGIE FONCTIONNELLE ET EVOLUTIVE   (France)

^d MUSEO NACIONAL DE CIENCIAS NATURALES   (Spain)

Author keywords

Category; Divergence times; Evolutionary species concept; Linnaean system; Nomenclature; Phylogenetics; Rank; Taxon naming criteria; Taxonomic inflation; Taxonomy

Indexed keywords

AMPHIBIA; REPTILIA;

ANIMAL; CLASSIFICATION; HUMAN; NOMENCLATURE; PHYLOGENY; VERTEBRATE;

ANIMALS; HUMANS; NAMES; PHYLOGENY; VERTEBRATES;

EID: 84878839412     PISSN: 11755326     EISSN: 11755334     Source Type: Journal    
DOI: 10.11646/zootaxa.3636.2.1     Document Type: Article

References (237)

1. AmphibiaWeb. Information on amphibian biology and conservation. [web application] (2012) Berkeley, California: AmphibiaWeb. Available: http://amphibiaweb.org/. (Accessed: Aug 15, 2012).
2. Anderson, E. (1940) The concept of the genus: II. A survey of modern opinion. Bulletin of the Torrey Botanical Club, 67, 363-369.
3. Arnold, E.N., Arribas, O. & Carranza, S. (2007) Systematics of the Palaearctic and Oriental lizard tribe Lacertini (Squamata: Lacertidae: Lacertinae) with descriptions of eight new genera. Zootaxa, 1430, 1-86.
4. Arnold, E.N. & Burton, J.A. (1978) A Field Guide to the Reptiles and Amphibians of Britain and Europe. London: Collins.
5. Avise, J.C. (2000) Phylogeography: the History and Formation of Species. Cambridge, Harvard University Press.
6. Avise, J.C. & Johns, G.C. (1999) Proposal for a standardized temporal scheme of biological classification for extant species. Proceedings of the National Academy of Sciences of the U.S.A., 96, 7358-7363. http://dx.doi.org/10. 1073/pnas.96.13.7358
7. Avise, J.C. & Liu, J.X. (2011) On the temporal inconsistencies of Linnaean taxonomic ranks. Biological Journal of the Linnean Society, 102, 707-714. http://dx.doi.org/10.1111/j.1095-8312.2011.01624.x
8. Avise, J.C. & Mitchell, D. (2007) Time to standardize taxonomies. Systematic Biology, 56, 130-133. http://dx.doi.org/10.1080/10635150601145365
9. Barata, M., Carranza, S. & Harris, D.J. (2012) Extreme genetic diversity in the lizard Atlantolacerta andreanskyi (Werner, 1929): a montane cryptic species complex. BMC Evolutionary Biology, 12, e167. http://dx.doi.org/10.1186/1471-2148-12-167
10. Berlin, B. (1992) Ethnobiological Classification: Principles of Categorization of Plants and Animals in Traditional Societies. Princeton University Press.
11. Bertrand, Y., Pleijel, F. & Rouse, G.W. (2006) Taxonomic surrogacy in biodiversity assessments, and the meaning of Linnaean ranks. Systematics and Biodiversity, 4, 149-159. http://dx.doi.org/10.1017/S1477200005001908
12. Béthoux, O. (2007) Propositions for a character-state-based biological taxonomy. Zoologica Scripta, 36, 409-416. http://dx.doi.org/10.1111/ j.1463-6409.2007.00287.x
13. Bickford, D., Lohman, D.J., Sodhi, N.S., Ng, P.K., Meier, R., Winker, K., Ingram, K.K. & Das, I. (2007) Cryptic species as a window on diversity and conservation. Trends in Ecology and Evolution, 22, 148-155. http://dx.doi.org/ 10.1016/j.tree.2006.11.004
14. Biju, S.D. & Bossuyt, F. (2003) New frog family from India reveals an ancient biogeographical link with the Seychelles. Nature, 425, 711-714. http://dx.doi.org/10.1038/nature02019
15. Blackburn, D.C. (2008) Biogeography and evolution of body size and life history of African frogs: phylogeny of squeakers (Arthroleptis) and long-fingered frogs (Cardioglossa) estimated from mitochondrial data. Molecular Phylogenetics and Evolution, 49, 806-826. http://dx.doi.org/10.1016/j.ympev. 2008.08.015
16. Blackburn, D.C. & Wake, D.B. (2011) Class Amphibia Gray, 1825. In: Zhang, Z.-Q. (Ed.) Animal Biodiversity: An Outline of Higher-Level Classification and Survey of Taxonomic Richness. Zootaxa, 3148, 39-55.
17. Blotto, B.L., Nuñez, J.J., Basso, N.G., Úbeda, C.A., Wheeler, W.C., Faivovich, J. (2013) Phylogenetic relationships of a Patagonian frog radiation, the Alsodes + Eupsophus clade (Anura: Alsodidae), with comments on the supposed paraphyly of Eupsophus. Cladistics, 29, 113-131. http://dx.doi.org/10.1111/j.1096-0031.2012.00417.x
18. Boore, J.L. & Fuerstenberg, S.I. (2008) Beyond linear sequence comparisons: the use of genome-level characters for phylogenetic reconstruction. Philosophical Transactions of the Royal Society B, 363, 1445-1451. http://dx.doi.org/10.1098/rstb.2007.2234
19. Bossuyt, F. & Roelants, K. (2009) Anura. In: Hedges, S. B. & Kumar, S. (Eds.). Timetree of Life, Oxford University Press, New York, pp 357-364.
20. Boulenger, G.A. (1882a) Catalogue of the Batrachia Salentia s. Ecaudata in the collection of the British Museum, ed. 2, p. 1-503.
21. Boulenger, G.A. (1882b) Catalogue of the Batrachia Gradientia s. Caudata and Batrachia Apoda in the collection of the British Museum, ed. 2, p. 1-127.
22. Boulenger, G.A. (1885a) Catalogue of the lizards in the British Museum (Natural History) I. Geckonidae, Eublepharidae, Uroplatidae, Pygopodidae, Agamidae, Second edition, London, vol. 1, p. 1-436.
23. Boulenger, G.A. (1885b) Catalogue of the lizards in the British Museum (Natural History) II. Iguanidae, Xenosauridae, Zonuridae, Anguidae, Anniellidae, Helodermatidae, Varanidae, Xantusiidae, Teiidae, Amphisbaenidae, Second edition, London, vol. 2, p. 1-497.
24. Boulenger, G.A. (1887) Catalogue of the Lizards in the British Museum (Nat. Hist.) III. Lacertidae, Gerrhosauridae, Scincidae, Anelytropsidae, Dibamidae, Chamaeleontidae. London, p. 1-575.
25. Boulenger, G.A. (1889) Catalogue of the Chelonians, Rhynchocephalians, and Crocodiles in the British Museum (Natural History). British Museum, London, 311 pp.
26. Boulenger, G.A. (1893) Catalogue of the Snakes of the British Museum (Natural History). Vol I, Containing the families Typhlopidae, Glauconiidae, Boidae, Ilysiidae, Uropeltidae, Xenopeltidae, Colubridae Aglyphae, part., xiii, 448 pp., 28 pls.
27. Boulenger, G.A. (1896) Catalogue of the Snakes of the British Museum (Natural History). Vol. III, Containing the Colubridae (Opisthoglyphae and Proteroglyphae), Amblycephalidae, and Viperidae, 727 pp., 25 pls. Trustees of the British Museum, London.
28. Bromham, L. & Penny, D. (2003) The modern molecular clock. Nature Reviews Genetics, 4, 216-224. http://dx.doi.org/10.1038/nrg1020
29. Brooks, D.R., Caira, J.N., Platt, T.R. & Pritchard, M.R. (1984) Principles and Methods of Phylogenetic Systematics: A Cladistics Workbook. Univ Kansas Mus Nat Hist Special Pub, 12, 1-92.
30. Brower, A.V.Z. (2010) Alleviating the taxonomic impediment of DNA barcoding and setting a bad precedent: names for ten species of 'Astraptes fulgerator' (Lepidoptera: Hesperiidae: Eudaminae) with DNA-based diagnoses. Systematics and Biodiversity, 8, 485-491. http://dx.doi.org/10.1080/14772000. 2010.534512
31. Brown, J.L. & Twomey, E. (2009) Complicated histories: three new species of poison frogs of the genus Ameerega (Anura: Dendrobatidae) from north-central Peru. Zootaxa, 2049, 1-38.
32. Brown, J.L., Twomey, E., Amézquita, A., Barbosa de Souza, M., Caldwell, J.P., Lötters, S., von May, R., Melo-Sampaio, P.R., Mejía-Vargas, D., Perez-Peña, P., Pepper, M., Poelman, E.H., Sánchez-Rodríguez, M. & Summers, K. (2011) A taxonomic revision of the Neotropical poison frog genus Ranitomeya (Amphibia: Dendrobatidae). Zootaxa, 3083, 1-120.
33. Cain, A.J. (1956) The genus in evolutionary taxonomy. Systematic Zoology, 5, 97-109. http://dx.doi.org/10.2307/2411572
34. Cancino, W. & Delbem, A.C.B. (2010) A multi-criterion evolutionary approach applied to phylogenetic reconstruction. In: Korosec, P. (ed.) New Achievements in Evolutionary Computation. Intech, Croatia. pp. 135-156. http://dx.doi.org/10.5772/8051
35. Cantino, P.D. & de Queiroz, K. (2010) PhyloCode: International Code of Phylogenetic Nomenclature (Version 4c). Available On-Line (http://www.ohio.edu/phylocode). 2010.
36. Castroviejo-Fisher, S., Pérez-Peña, P.E., Padial, J.M. & Guayasamin, J.M. (2012) A second species of the family Allophrynidae (Amphibia: Anura). American Museum Novitates, 3739, 1-17. http://dx.doi.org/10.1206/3739.2
37. Cela-Conde, C.J. & Ayala, F.J. (2003) Genera of the human lineage. Proceedings of the National Academy of Sciences of the U.S.A., 100, 7684-7689. http://dx.doi.org/10.1073/pnas.0832372100
38. Chen, W.J., Bonillo, C. & Lecointre, G. (2003) Repeatability of clades as a criterion of reliability: a case study for molecular phylogeny of Acanthomorpha (Teleostei) with larger number of taxa. Molecular Phylogenetics and Evolution, 26, 262-288. http://dx.doi.org/10.1016/S1055-7903(02)00371-8
39. Cisneros-Heredia, D. & McDiarmid, R.W. (2007) Revision of the characters of Centrolenidae (Amphibia: Anura: Athesphatanura), with comments on its taxonomy and the description of new taxa of glassfrogs. Zootaxa, 1572, 1-82.
40. Costello M.J., May R.M. and Stork N.E. (2013) Can we name Earth's species before they go extinct? Science, 339, 413-416 http://dx.doi.org/10.1126/ science.1230318
41. Darwin, C. (1859) On the Origin of Species by Means of Natural Selection, or the Preservation of Favoured Races in the Struggle for Life. London: John Murray.
42. Dawkins, R. (1982) The Extended Phenotype. Oxford University Press.
43. Dawkins, R. (2011) The Magic of Reality: How We Know What's Really True. Bantam Press.
44. Dayrat, B. (2005) Toward integrative taxonomy. Biological Journal of the Linnean Society, 85, 407-415. http://dx.doi.org/10.1111/j.1095-8312.2005.00503.x
45. DeBry, R.W. (2001) Improving interpretation of the Decay Index for DNA sequence data. Systematic Biology, 50, 742-752. http://dx.doi.org/10.1080/ 106351501753328866
46. Degnan, J. & Rosenberg, N. (2009) Gene tree discordance, phylogenetic inference and the multispecies coalescent. Trends in Ecology and Evolution, 24, 332-340. http://dx.doi.org/10.1016/j.tree.2009.01.009
47. de Queiroz, K. (1998) The general lineage concept of species, species criteria, and the process of speciation: A conceptual unification and terminological recommendations. Pages 57-75 in Endless Forms: Species and Speciation (D. J. Howard, and S. H. Berlocher, eds.). Oxford University Press, New York.
48. de Queiroz, K. (2007) Species concepts and species delimitation. Systematic Biology, 56, 879-886. http://dx.doi.org/10.1080/10635150701701083
49. de Queiroz, A. & Donoghue, M.J., Kim J (1995) Separate versus combined analysis of phylogenetic evidence. Annual Review of Ecology and Systematics, 26, 657-681. http://dx.doi.org/10.1146/annurev.es.26.110195.003301
50. de Queiroz, K. & Gauthier, J. (1992) Phylogenetic taxonomy. Annual Review of Ecology and Systematics, 23, 449-480. http://dx.doi.org/10.1146/ annurev.es.23.110192.002313
51. Drewes, R.C. (1984) A phylogenetic analysis of the Hyperoliidae (Anura): treefrogs of Africa, Madagascar, and the Seychelles Islands. Occasional Papers of the California Academy of Sciences, 139, 1-70.
52. Dobzhansky, T. (1973) Nothing in biology makes sense except in the light of evolution. The American Biology Teacher, 35, 125-129. http://dx.doi.org/10. 2307/4444260
53. Dubois, A. (1981) Hybridation interspécifique et notion du genre en zoologie. Comptes Rendues de la Academie des Sciences, 292(A), 201-203.
54. Dubois, A. (1987) Some comments on the genus concept in zoology. Monitore Zoologico Italiano, 22, 27-44.
55. Dubois, A (1988) The genus in zoology: a contribution to the theory of evolutionary systematics. Mémoires du Muséum National d'Histoire Naturelle (A), 140, 1-123.
56. Dubois, A (2004) Developmental pathway, speciation and supraspecific taxonomy in amphibians. 2. Developmental pathway, hybridizability and generic taxonomy. Alytes, 22, 38-52.
57. Dubois, A. (2006a) Proposed Rules for the incorporation of nomina of higher-ranked zoological taxa in the International Code of Zoological Nomenclature. 2. The proposed Rules and their rationale. Zoosystema, 28, 165-268.
58. Dubois, A. (2006b) Naming taxa from cladograms: a cautionary tale. Molecular Phylogenetics and Evolution, 42, 317-330. http://dx.doi.org/10.1016/j. ympev.2006.06.007
59. Dubois, A. (2007) Naming taxa from cladograms: some confusions, misleading statements, and necessary clarifications. Cladistics, 23, 390-402. http://dx.doi.org/10.1111/j.1096-0031.2007.00151.x
60. Dubois, A. (2011) The International Code of Zoological Nomenclature must be drastically improved before it is too late. Bionomina, 2, 1-104. http://dx.doi.org/10.11646/bionomina.2.1.1
61. Dubois, A. & Raffaëlli, J. (2009) A new ergotaxonomy of the family Salamandridae Goldfuss, 1820 (Amphibia, Urodela). Alytes, 26, 1-85.
62. Dubois, A. & Raffaëlli, J. (2012) A new ergotaxonomy of the order Urodela Duméril, 1805 (Amphibia, Batrachia). Alytes, 28, 77-161.
63. Duméril, A.M.C. & Bibron, G. (1834-1854) Erpétologie générale, ou, Histoire naturelle complète des reptiles. Volumes 1-9.
64. Eernisse, D.J. & Kluge, A.G. (1993) Taxonomic congruence versus total evidence, and the phylogeny of amniotes inferred from fossils, molecules and morphology. Molecular Biology and Evolution, 10, 1170-1195.
65. Erdmann, M.V., Caldwell, R.L. & Moosa, M.K. (1998) Indonesian 'King of the Sea' discovered. Nature, 395, 335. http://dx.doi.org/10.1038/26376
66. Ereshefsky, M. (2001) The Poverty of the Linnaean hierarchy. A Philosophical Study of Biological Taxonomy. Cambridge, University Press.
67. Faivovich, J., Haddad, C.F.B., Garcia, P.C.A., Frost, D.R., Campbell, J.A. & Wheeler, W.C. (2005) Systematic review of the frog family Hylidae, with special reference to Hylinae: phylogenetic analysis and taxonomic revision. Bulletin of the American Museum of Natural History, 294, 1-240.
68. Farris, J.S. (1976) Phylogenetic classification of fossils with recent species. Systematic Zoology, 25: 271-282. http://dx.doi.org/10.2307/2412495
69. Felsenstein, J. (1973) Maximum-likelihood and minimal-steps methods for estimating evolutionary trees from data on discrete characters. Systematic Zoology, 22, 240-249. http://dx.doi.org/10.2307/2412304
70. Felsenstein, J. (1985a) Confidence limits on phylogenies with a molecular clock. Systematic Zoology, 34, 152-161. http://dx.doi.org/10.2307/2413323
71. Felsenstein, J. (1985b) Confidence limits on phylogenies: An approach using the bootstrap. Evolution, 39, 783-791. http://dx.doi.org/10.2307/2408678
72. Felsenstein, J. (2001) The troubled growth of statistical phylogenetics. Systematic Biology, 50, 465-467. http://dx.doi.org/10.1080/10635150119297
73. Fitzpatrick, J.W. (2010) Subspecies are for convenience. Ornithological Monographs, 67, 54-61. http://dx.doi.org/10.1525/om.2010.67.1.54
74. Fonseca, V.G., Carvalho, G.R., Sung, W., Johnson, H.F., Power, D.M., Neill, S.P., Packer, M., Blaxter, M.L., Lambshead, P.J., Thomas, W.K. & Creer, S. (2010) Second-generation environmental sequencing unmasks marine metazoan biodiversity. Nature Comm, 1, e98. http://dx.doi.org/10.1038/ncomms1095
75. Fontaneto, D., Boschetti, C. & Ricci, C. (2008) Cryptic diversification in ancient asexuals: evidence from the bdelloid rotifer Philodina flaviceps. Journal of Evolutionary Biology, 21, 580-587. http://dx.doi.org/10.1111/j.1420-9101.2007.01472.x
76. Forey, P.L. (2005) Naming the world: is there anything left on Linnaeus? Proceedings of the California Academy of Sciences, 56, 182-195.
77. Forey, P.L., Fortey, R.A., Kenrick, P. & Smith, A.B. (2004) Taxonomy and fossils: a critical approach. Philosophical Transactions of the Royal Society B, 359, 639-653. http://dx.doi.org/10.1098/rstb.2003.1453
78. Franz, N.M. (2005) On the lack of good scientific reasons for the growing phylogeny/classification gap. Cladistics, 21, 495-500. http://dx.doi.org/10. 1111/j.1096-0031.2005.00080.x
79. Frazier, J. & Matyot, P. (2010) On the identity of Monsieur Dussumier's Dutch tortoise and the lectotype of Testudo dussumieri Gray, 1831. Zootaxa, 2665, 29-50.
80. Fritz, U. & Bininda-Emonds, O.R.P. (2007) When genes meet nomenclature: Tortoise phylogeny and the shifting generic concepts of Testudo and Geochelone. Zoology, 110, 298-307. http://dx.doi.org/10.1016/j.zool.2007.02. 003
81. Fritz, U. & Havaš, P. (2007) Checklist of chelonians of the world. Vertebrate Zoology, 57, 149-368.
82. Fritz, U., Schmidt, C. & Ernst, C.H. (2011) Competing generic concepts for Blanding's, Pacific and European pond turtles (Emydoidea, Actinemys and Emys)-Which is best? Zootaxa, 2791, 41-53.
83. Frodin, D.G. (2004) History and concepts of big plant genera. Taxon, 53, 753-776. http://dx.doi.org/10.2307/4135449
84. Frost, D.R. (2011) Amphibian Species of the World: an Online Reference. Version 5.5 (31 January, 2011). Electronic Database accessible at http://research.amnh.org/vz/herpetology/amphibia/American Museum of Natural History, New York, USA; 2012.
85. Frost, D.R., Grant, T., Faivovich, J., Baina, R.H., Haas, A., Haddad, C.F.B., de Sá, R.O., Channing, A., Wilkinson, M., Donnellan, S.C., Raxworthy, C.J., Campbell, J.A., Blotto, B.L., Moler, P., Drewes, R.C., Nussbaum, R.A., Lynch, J.D., Green, D.M. & Wheeler, W.C. (2006) The amphibian tree of life. Bulletin of the American Museum of Natural History, 297, 1-291. http://dx.doi.org/10.1206/0003-0090(2006)297[0001:TATOL]2.0.CO;2
86. Frost, D.R., Grant, T., Faivovich, J., Bain, R.H., Haas, A., Haddad, C.F.B., de Sa, R.O., Channing, A., Wilkinson, M., Donnellan, S.C., Raxworthy, C.J., Campbell, J.A., Blotto, B.L., Moler, P., Drewes, R.C., Nussbaum, R.A., Lynch, J.D., Green, D.M. & Wheeler, W.C. (2008) Is The Amphibian Tree of Life really fatally flawed? Cladistics, 24, 385-395.
87. Frost, D.R., McDiarmid, R.W. & Mendelson, III J.R. (2009) Response to the Point of View of Gregory B. Pauly, David M. Hillis, and David C. Cannatella, by the Anuran Subcommittee of the Ssar/hl/asih Scientific and Standard English Names List. Herpetologica, 65, 136-153. http://dx.doi.org/10. 1655/09-009R1.1
88. Fundel, K. & Zimmer, R. (2006) Gene and protein nomenclature in public databases. BMC Bioinformatics, 7, 372. http://dx.doi.org/10.1186/1471- 2105-7-372
89. Funk, D.J. & Omland, K.E. (2003) Species-level paraphyly and polyphyly: frequency, causes and consequences, with insights from animal mitochondrial DNA. Annual Review of Ecology, Evolution and Systematics, 34, 397-423. http://dx.doi.org/10.1146/annurev.ecolsys.34.011802.132421
90. Funk, W.C., Caminer, M. & Ron, S.R. (2012) High levels of cryptic species diversity uncovered in Amazonian frogs. Proceedings of the Royal Society B, 279, 1806-1814. http://dx.doi.org/10.1098/rspb.2011.1653
91. Gasc, J.P., Cabela, A., Crnobrnja-Isailovic, J., Dolmen, D., Grossenbacher, K., Haffner, P., Lescure, J., Martens, H., Martínez-Rica, J.P., Maurin, H., Oliveira, M.E., Sofianidou, T.S., Veith, M. & Zuiderwijk, A. (1997) Atlas of amphibians and reptiles in Europe. Societas Europaea Herpetologica and Muséum national d'Histoire naturelle, Paris.
92. Gérard, D., Vignes-Lebbe, R. & Dubois, A. (2006) Ziusudra, de la nomenclature à l'informatique: l'exemple des Amphibiens. Alytes, 24, 117-132.
93. Glaw, F. & Vences, M. (2006) Phylogeny and genus-level classification of mantellid frogs. Organisms Diversity and Evolution, 6, 236-253. http://dx.doi.org/10.1016/j.ode.2005.12.001
94. Gordh, G. & Beardsley, J.W. (1999) Taxonomy and biological control. pp. 45-55 in: Bellows, T. S.; Fisher, T. W. (eds). Handbook of Biological Control: Principles and Applications of Biological Control. Academic Press.
95. Grant, T., Frost, D.R., Caldwell, J.P., Gagliardo, R., Haddad, C.F.B., Kok, P.J.R., Means, D.B., Noonan, B.P., Schargel, W.E. & Wheeler, W.C. (2006) Phylogenetic systematics of dart-poison frogs and their relatives (Amphibia: Athesphatanura: Dendrobatidae). Bulletin of the American Museum of Natural History, 299, 1-262.
96. Green, R.E., Krause, J., Briggs, A.W., Maricic, T., Stenzel, U., Kircher, M., Patterson, N., Li, H., Zhai, W., Fritz, M.H., Hansen, N.F., Durand, E.Y., Malaspinas, A.S., Jensen, J.D., Marques-Bonet, T., Alkan, C., Prüfer, K., Meyer, M., Burbano, H.A., Good, J.M., Schultz, R., Aximu-Petri, A., Butthof, A., Höber, B., Höffner, B., Siegemund, M., Weihmann, A., Nusbaum, C., Lander, E.S., Russ, C., Novod, N., Affourtit, J., Egholm, M., Verna, C., Rudan, P., Brajkovic, D., Kucan, Z., Gusic, I., Doronichev, V.B., Golovanova, L.V., Lalueza-Fox, C., de la Rasilla, M., Fortea, J., Rosas, A., Schmitz, R.W., Johnson, P.L., Eichler, E.E., Falush, D., Birney, E., Mullikin, J.C., Slatkin, M., Nielsen, R., Kelso, J., Lachmann, M., Reich, D. & Pääbo, S. (2010) A draft sequence of the Neandertal genome. Science, 328, 710-722. http://dx.doi.org/10.1126/science.1188021
97. Guayasamin, J.M., Castroviejo-Fisher, S., Ayarzagüena, J., Trueb, L. & Vilà, C. (2008) Phylogenetic relationships of glassfrogs (Centrolenidae) based on mitochondrial and nuclear genes. Molecular Phylogenetics and Evolution, 48, 574-595.
98. Guayasamin, J.M., Castroviejo-Fisher, S., Trueb, L., Ayarzagüena, J., Rada, M. & Vilà, C. (2009) Phylogenetic systematics of glassfrogs (Amphibia: Centrolenidae) and their sister taxon Allophryne ruthveni. Zootaxa, 2100, 1-97. http://dx.doi.org/10.1016/j.ympev.2008.04.012
99. Hackett, S.J., Kimball, R.T., Reddy, S., Bowie, R.C., Braun, E.L., Braun, M.J., Chojnowski, J.L., Cox, W.A., Han, K.L., Harshman, J., Huddleston, C.J., Marks, B.D., Miglia, K.J., Moore, W.S., Sheldon, F.H., Steadman, D.W., Witt, C.C. & Yuri, T. (2008) A phylogenomic study of birds reveals their evolutionary history. Science, 320, 1763-1768. http://dx.doi.org/10.1126/ science.1157704
100. Haig, S.M. & Winker, K. (2010) Avian subspecies: summary and prospectus. Ornithological Monographs, 67, 172-175. http://dx.doi.org/10.1525/ om.2010.67.1.172
101. Hammer, M.F., Woerner, A.E., Mendez, F.L., Watkins, J.C. & Wall, J.D. (2011) Genetic evidence for archaic admixture in Africa. Proceedings of the National Academy of Sciences of the U.S.A., 108, 15123-15128. http://dx.doi.org/10.1073/pnas.1109300108
102. Hawlitschek, O., Nagy, Z.T. & Glaw, F. (2012) Island evolution and systematic revision of Comoran snakes: why and when subspecies still make sense. PLoS ONE, 7, e42970. http://dx.doi.org/10.1371/journal.pone.0042970
103. Hebert, P.D.N., Cywinska, A., Ball, S.L. & DeWaard, J.R. (2003) Biological identifications through DNA barcodes. Proceedings of the Royal Society B, 270, 313-321. http://dx.doi.org/10.1098/rspb.2002.2218
104. Hedges, S.B. (1992) The number of replications needed for accurate estimation of the bootstrap P-value in phylogenetic studies. Molecular Biology and Evolution, 9, 366-369.
105. Hedges, S.B. & Conn, C.E. (2012) A new skink fauna from Caribbean islands (Squamata, Mabuyidae, Mabuyinae). Zootaxa, 3288: 1-244.
106. Hedges, S.B., Dudley, J. & Kumar, S. (2006) TimeTree: a public knowledge-base of divergence times among organisms. Bioinformatics, 22, 2971-2972. http://dx.doi.org/10.1093/bioinformatics/btl505
107. Hedges, S.B., Duellman, W.E. & Heinicke, M.P. (2008) New World direct-developing frogs (Anura: Terrarana): Molecular phylogeny, classification, biogeography, and conservation. Zootaxa, 1737, 1-182.
108. Hedges, S.B. & Kumar, S. (2009) (eds): The Timetree of Life. Oxford University Press; 2009. 551 pp.
109. Heinicke, M.P., Duellman, W.E., Trueb, L., Means, D.B., MacCulloch, R.D. & Hedges, S.B. (2009) A new frog family (Anura: Terrarana) from South America and an expanded direct-developing clade revealed by molecular phylogeny. Zootaxa, 2211, 1-35.
110. Hellmich, W. (1962) Reptiles and Amphibians of Europe. London: Blandford Press. 160 pp.
111. Hennig, W. (1966) Phylogenetic Systematics. Urbana: Univ. Illinois Press. 263 pp.
112. Heyer, W.R. (1969) The adaptive ecology of the species groups of the genus Leptodactylus (Amphibia, Leptodactylidae). Evolution, 23, 421-428. http://dx.doi.org/10.2307/2406697
113. Hillis, D.M. (2007) Constraints in naming parts of the Tree of Life. Molecular Phylogenetics and Evolution, 42, 331-338. http://dx.doi.org/10.1016/j. ympev.2006.08.001
114. Hillis, D.M. & Bull, J.J. (1993) An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Systematic Biology, 42, 182-192. http://dx.doi.org/10.2307/2992540
115. Hillis, D.M. & Wilcox, T.P. (2005) Phylogeny of the New World true frogs (Rana). Molecular Phylogenetics and Evolution, 34, 299-314. http://dx.doi.org/10.1016/j.ympev.2004.10.007
116. Hoogmoed, M. (2010) Comment on the proposed conservation of usage of Testudo gigantea Schweigger, 1812 (currently Geochelone (Aldabrachelys) gigantea; Reptilia, Testudines) (Case 3463; see BZN 66: 34-50, 80-87, 169-186, 274-290, 352-357; 67: 71-90, 170-178, 246-254, 319-331). Bulletin of Zoological Nomenclature, 68, 72-77.
117. Horn, J.W., van Ee, B.W., Morawetz, J.J., Riina, R., Steinmann, V.W., Berry, P.E. & Wurdack, K. (2012) Phylogenetics and the evolution of major structural characters in the giant genus Euphorbia L. (Euphorbiaceae). Molecular Phylogenetics and Evolution, 3, 305-326. http://dx.doi.org/10.1016/j.ympev. 2011.12.022
118. Humphreys, A.M. & Linder, H.P. (2009) Concept versus data in delimitation of plant genera. Taxon, 58, 1054-1074.
119. ICZN (2010) Opinion 2245 (Case 3407). Drosophila Fallén, 1823 (Insecta, Diptera): Drosophila funebris Fabricius, 1787 is maintained as the type species. Bulletin of Zoological Nomenclature, 67, 106-115.
120. Inger, R.F. (1958) Comments on the definition of genera. Evolution, 12, 370-384. http://dx.doi.org/10.2307/2405859
121. Isaac, N.J., Mallet, J. & Mace, G.M. (2004) Taxonomic inflation: its influence on macroecology and conservation. Tren d s in Ecology and Evolution, 19, 464-469. http://dx.doi.org/10.1016/j.tree.2004.06.004
122. Jablonski, D. & Finarelli, J.A. (2009) Congruence of morphologically-defined genera with molecular phylogenies. Proceedings of the National Academy of Sciences of the U.S.A., 106, 8262-8266. http://dx.doi.org/ 10.1073/pnas.0902973106
123. Jackman, T.R., Applebaum, G. & Wake, D.B. (1997) Phylogenetic relationships of bolitoglossine salamanders: a demonstration of the effects of combining morphological and molecular data sets. Molecular Biology and Evolution, 14, 883-891. http://dx.doi.org/10.1093/oxfordjournals.molbev.a025830
124. Jansen, M., Bloch, R., Schulze, A. & Pfenninger, M. (2011) Integrative inventory of Bolivia's lowland anurans reveals hidden diversity. Zoologica Scripta, 40: 567-583. http://dx.doi.org/10.1111/j.1463-6409.2011. 00498.x
125. Joppa, L.N., Roberts, D.L. & Pimm, S.L. (2011) The population ecology and social behaviour of taxonomists. Trends in Ecology and Evolution, 26, 551-553. http://dx.doi.org/10.1016/j.tree.2011.07.010
126. Karl, S.A., Bowen, B.W. & Avise, J.C. (1995) Hybridization among the ancient mariners: characterization of marine turtle hybrids with molecular genetic assays. Journal of Heredity, 86, 262-268.
127. Kimball, R.T. & Braun, E.L. (2008) A multigene phylogeny of Galliformes supports a single origin of erectile ability in non-feathered facial traits. Journal of Avian Biology, 39, 438-445.
128. Kluge, A.G. (1991) Boine snake phylogeny and research cycles. Miscellaneous Publications Museum of Zoology University of Michigan, 178, 1-58.
129. Kluge, A.G. & Farris, J.S. (1969) Quantitative phyletics and the evolution of anurans. Systematic Zoology, 18, 1-32. http://dx.doi.org/10.2307/ 2412407
130. Knobloch, I.W. (1972) Intergeneric hybridization in flowering plants. Taxon, 21, 97-103. http://dx.doi.org/10.2307/1219229
131. Köhler, J., Vieites, D.R., Bonett, R.M., Hita García, F., Glaw, F., Steinke, D. & Vences, M. (2005) Boost in species discoveries in a highly endangered vertebrate group: new amphibians and global conservation. BioScience, 55, 693-696.
132. Kumar, S. (2005) Molecular clocks: four decades of evolution. Nature Reviews Genetics, 6, 654-662. http://dx.doi.org/10.1038/nrg1659
133. Kuntner, M. & Agnarsson, I. (2006) Are the Linnaean and phylogenetic nomenclatural systems combinable? Recommendations for biological nomenclature. Systematic Biology, 55, 774-784. http://dx.doi.org/10.1080/10635150600981596
134. Laurin, M. (2010) The subjective nature of Linnaean categories and its impact in evolutionary biology and biodiversity studies. Contributions to Zoology, 79, 131-146.
135. Le, M., Raxworthy, C.J., McCord, W.P. & Mertz, L. (2006) A molecular phylogeny of tortoises (Testudines: Testudinidae) based on mitochondrial and nuclear genes. Molecular Phylogenetics and Evolution, 40, 517-531. http://dx.doi.org/10.1016/j.ympev.2006.03.003
136. Linnaeus, C. (1758) Systema naturae per regna tria naturae: secundum classes, ordines, genera, species, cum characteribus, differentiis, synonymis, locis (10th edition ed.). Stockholm: Laurentius Salvius.
137. Liu, L., Yu, L., Kubatko, L., Pearl, D.K. & Edwards, S.V. (2009) Coalescent methods for estimating phylogenetic trees. Molecular Phylogenetics and Evolution, 53, 320-328. http://dx.doi.org/10.1016/j.ympev.2009.05.033
138. Maciel, A. O. (2009) A second species of Brasilotyphlus (Amphibia : Gymnophiona : Caeciliidae) from Brazilian Amazonia. Zootaxa, 27, 19-27
139. Maggenti, A.R. (1989) Genus and family: concepts and natural groupings. Revue de Nématologie, 12, 3-6.
140. Maglia, A.M., Leopold, J.L. & Ghatti, V.R. (2004) Identifying character non-independence in phylogenetic data using data mining techniques. Proceedings Second Asia-Pacific Bioinformatics Conference Dunedin, New Zealand.
141. Martin, A.A. & Watson, G.F. (1971) Life history as an aid to generic delimitation in the family Hylidae. Copeia, 78-89. http://dx.doi.org/10.2307/ 1441601
142. Mausfeld, P., Schmitz, A., Böhme, W., Misof, B., Vrcibradic, D. & Rocha, C.F.D. (2002) Phylogenetic affinities of Mabuya atlantica Schmidt, 1945, endemic to the Atlantic Ocean archipelago of Fernando de Noronha (Brazil): necessity of partitioning the genus Mabuya Fitzinger, 1826 (Scincidae: Lygosominae). Zoologischer Anzeiger, 241: 281-293. http://dx.doi.org/10.1078/ 0044-5231-00081
143. Mayden, R.L. (1997) A hierarchy of species concepts: The denouement in the saga of the species problem. In Claridge, MF; Dawah, HA; Wilson, MR. Species: The Units of Biodiversity. London: Chapman and Hall. pp.381-424
144. Mayden, R.L. (2002) On biological species, species concepts and individuation in the natural world. Fish and Fisheries, 3, 171-196. http://dx.doi.org/10.1046/j.1467-2979.2002.00086.x
145. Mayr, E. (1942) Systematics and the Origin of Species from the Viewpoint of a Zoologist. New York: Columbia University Press.
146. Mayr, E. (1946) The number of species of birds. Auk, 63, 64-69. http://dx.doi.org/10.2307/4079907
147. Mayr, E. (1950) Taxonomic categories in fossil hominids.Cold Spring Harbor Symp Quant Biol, 15, 109-118. http://dx.doi.org/10.1101/SQB.1950.015.01. 013
148. Mayr, E. (1982) The Growth of Biological Thought: Diversity, Evolution, and Inheritance. Harvard University Press. http://dx.doi.org/10.1056/ NEJM198305123081929
149. McCarthy, E.M. (2006) Handbook of Avian Hybrids of the World. New York: Oxford University Press.
150. Miller, G.A. (1956) The magical number seven, plus or minus two. Psychological Review, 63, 81-87. http://dx.doi.org/10.1037/h0043158
151. Modesto, S.P. & Anderson, J.S. (2004) The phylogenetic definition of Reptilia. Systematic Biology, 53, 815-821. http://dx.doi.org/10.1080/ 10635150490503026
152. Montagu, M.F.A. (1950) A hybrid gibbon. Journal of Mammalogy, 31, 150-153. http://dx.doi.org/10.2307/1375507
153. Mora, C., Tittensor, D.P., Adl, S., Simpson, A.G.B. & Worm, B. (2011) How many species are there on Earth and in the Ocean? PLoS Bioogy, 9, e1001127. http://dx.doi.org/10.1371/journal.pbio.1001127
154. Müller, J., Hipsley, C.A., Head, J.J.; Kardjilov, N., Hilger, A., Wuttke, M. & Reisz, R.R. (2011) Eocene lizard from Germany reveals amphisbaenian origins. Nature, 473: 364-367. http://dx.doi.org/10.1038/ nature09919
155. Nabhan, A.R. & Sarkarm I.N. (2012) The impact of taxon sampling on phylogenetic inference: a review of two decades of controversy. Briefings in Bioinformatics, 13, 122-134. http://dx.doi.org/10.1093/bib/bbr014
156. Nicholson, K.E., Crother, B.I., Guyer, C. & Savage, J.M. (2012) It is time for a new classification of anoles (Squamata: Dactyloidae). Zootaxa, 3477: 1-108.
157. Nielson, M., Lohman, K. & Sullivan, J. (2001) Phylogeography of the Tailed Frog (Ascaphus truei): implications for the biogeography of the Pacific Northwest. Evolution, 55, 147-160. http://dx.doi.org/10.1111/j.0014-3820.2001. tb01280.x
158. Noonan, B.P. & Chippindale, P.T. (2006) Dispersal and vicariance: The complex evolutionary history of boid snakes. Molecular Phylogenetics and Evolution, 40, 347-358. http://dx.doi.org/10.1016/j.ympev.2006.03.010
159. O'Grady, P.M. & Markow, T.A. (2009) Phylogenetic taxonomy in Drosophila: Problems and prospects. Fly, 3, 10-14. http://dx.doi.org/10.4161/ fly.3.1.7748
160. Oliver, P., Doughty, P., Hutchinson, M.N., Lee, M.S.Y. & Adams, A. (2009) The taxonomic impediment in vertebrates: DNA sequence, allozyme and chromosomal data double estimates of species diversity in a lineage of Australian lizards (Diplodactylus, Gekkota). Proceedings of the Royal Society B, 276, 2001-2007. http://dx.doi.org/10.1098/rspb.2008.1881
161. Orthia, L.A., Cook, L.G. & Crisp, M.D. (2005) Generic delimitation and phylogenetic uncertainty: an example from a group that has undergone an explosive radiation. Austral Systematic Botany, 18, 41-47. http://dx.doi.org/10. 1071/SB04016
162. Owen, R.D. (1941) Reciprocal crosses between the guinea and the domestic fowl. Journal of Experimental Zoology, 88, 187-217. http://dx.doi.org/10.1002/ jez.1400880203
163. Padial, J.M. & De la Riva, I. (2006) Taxonomic inflation and the stability of species lists: the perils of ostrich's behavior. Systematic Biology, 55, 859-867. http://dx.doi.org/10.1080/1063515060081588
164. Padial, J.M., Miralles, A., De la Riva, I. & Vences, M. (2010) The integrative future of taxonomy. Frontiers in Zoology, 7, e16. http://dx.doi.org/10.1186/1742-9994-7-16
165. Panchen, A.L. (1992) Classification, Evolution, and the Nature of Biology. Cambridge University Press, Cambridge, USA.
166. Papavero, N., Llorente-Bousquets, J. & Minoro Abel, J. (2001) Proposal of a new system of nomenclature for phylogenetic systematics. Arquivos de Zoologia, 36, 1-145.
167. Pauly, G.B., Hillis, D.M. & Cannatella, D.C. (2009) Taxonomic freedom and the role of official lists of species names. Herpetologica, 65, 115-128. http://dx.doi.org/10.1655/08-031R1.1
168. Pfenninger, M. & Schwenk, K. (2007) Cryptic animal species are homogeneously distributed among taxa and biogeographical regions. BMC Evolutionary Biology, 19, e121. http://dx.doi.org/10.1186/1471-2148-7-121
169. Philippe, H., Brinkmann, H., Lavrov, D.V., Littlewood, D.T., Manuel, M., Wörheide, G. & Baurain, D. (2011) Resolving difficult phylogenetic questions: why more sequences are not enough. PLoS Biology, 9, e1000602. http://dx.doi.org/10.1371/journal.pbio.1000602
170. Pombal Jr., J.P., Memezes, V.A., Fontes, A.F., Nunes, I., Rocha, C.F.D. & Van Sluys, M. (2012) A second species of the Casque-headed frog genus Corythomantis (Anura: Hylidae) from northeastern Brazil, the distribution of C. greeningi, and comments on the genus. Boletim Museu Nacional Rio de Janeiro Nova Série, 530, 1-14.
171. Poulin, R. (2011) Uneven distribution of cryptic diversity among higher taxa of parasitic worms. Biology Letters, 7, 241-244. http://dx.doi.org/10.1098/ rsbl.2010.0640
172. Pyron, R.A. & Wiens, J.J. (2011) A large-scale phylogeny of Amphibia with over 2, 800 species, and a revised classification of extant frogs, salamanders, and caecilians. Molecular Phylogenetics and Evolution, 61, 543-583. http://dx.doi.org/10.1016/j.ympev.2011.06.012
173. Pyron, R.A., Burbrink, F.T., Colli, G.R., Nieto Montes de Oca, A., Vitt, L.J., Kuczynski, C.A. & Wiens, J.J. (2011) The phylogeny of advanced snakes (Colubroidea), with discovery of a new subfamily and comparison of support methods for likelihood trees. Molecular Phylogenetics and Evolution, 58, 329-342. http://dx.doi.org/10.1016/j.ympev.2010.11.006
174. Reich, D., Green, R.E., Kircher, M., Krause, J., Patterson, N., Durand, E.Y., Viola, B., Briggs, A.W., Stenzel, U., Johnson, P.L., Maricic, T., Good, J.M., Marques-Bonet, T., Alkan, C., Fu, Q., Mallick, S., Li, H., Meyer, M., Eichler, E.E., Stoneking, M., Richards, M., Talamo, S., Shunkov, M.V., Derevianko, A.P., Hublin, J.J., Kelso, J., Slatkin, M. & Pääbo, S. (2010) Genetic history of an archaic hominin group from Denisova Cave in Siberia. Nature, 468, 1053-1060. http://dx.doi.org/10.1038/nature09710
175. Remsen, J.V. Jr. (2010) Subspecies as a meaningful taxonomic rank in avian classification. Ornithological Monographs, 67, 62-78. http://dx.doi.org/ 10.1525/om.2010.67.1.62
176. Roelants, K., Gower, D.J., Wilkinson, M., Loader, S.P., Biju, S.D., Guillaume, K., Moriau, L. & Bossuyt, F. (2007) Global patterns of diversification in the history of modern amphibians. Proceedings of the National Academy of Sciences of the U.S.A., 104, 887-892. http://dx.doi.org/10.1073/ pnas.0608378104
177. Rohland, N., Reich, D., Mallick, S., Meyer, M., Green, R., Georgiadis, N., Roca, A. & Hofreiter, M. (2010) Genomic DNA sequences from Mastodon and Woolly Mammoth reveal deep speciation of Forest and Savanna Elephants. PLoS Biology, 8, 12. http://dx.doi.org/10.1371/journal.pbio.1000564
178. Rosenberg, M.S. & Kumar, S. (2001) Incomplete taxon sampling is not a problem for phylogenetic inference. Proceedings of the National Academy of Sciences of the U.S.A., 98, 10751-10756. http://dx.doi.org/10.1073/pnas. 191248498
179. Ruane, S., Pyron, R.A. & Burbrink, F.T. (2011) Phylogenetic relationships of the Cretaceous frog Beelzebufo from Madagascar and the placement of fossil constraints based on temporal and phylogenetic evidence. Journal of Evolutionary Biology, 24, 274-285. http://dx.doi.org/10.1111/j.1420- 9101.2010.02164.x
180. Ruiz-Carranza, P.M. & Lynch, J.D. (1991) Ranas Centrolenidae de Colombia I. Propuesta de una nueva clasificacion genérica. Lozania, 57, 1-30.
181. Schram, F. (2004) The truly new systematics-megascience in the information age. Hydrobiologia, 519, 1-7. http://dx.doi.org/10.1023/B:HYDR. 0000026601.89333.aa
182. Schmidtler, J.F. (2009) Ichthyosaura, der neue Gattungsname für den Bergmolch-ein Lehrbeispiel in Sachen Nomenklatur. Zeitschrift für Feldherpetologie, 16, 245-250.
183. Schreiber, E. (1912) Herpetologia Europaea. Eine systematische Bearbeitung der Amphibien und Reptilien welche bisher in Europa aufgefunden sind. Jena: Verlag von Gustav Fischer.
184. Schulte II, J.A., Macey, J.R., Larson, A. & Papenfuss, T.J. (1998) Molecular tests of phylogenetic taxonomies: a general procedure and example using four subfamilies of the lizard family Iguanidae. Molecular Phylogenetics and Evolution, 10, 367-376. http://dx.doi.org/10.1006/mpev.1998.0541
185. Scotland, R.W. & Sanderson, M.J. (2004) The significance of few versus many in the Tree of Life. Science, 303, 643. http://dx.doi.org/10.1126/ science.1091483
186. Scott, A. (2005) A phylogeny of ranid frogs (Anura: Ranoidea: Ranidae), based on a simultaneous analysis of morphological and molecular data. Cladistics, 21, 507-574. http://dx.doi.org/10.1111/j.1096-0031.2005.00079.x
187. Shimada, T., Matsui, M., Yambun, P., Lakim, M. & Mohamed, M. (2008) Detection of two cryptic taxa in Meristogenys amoropalmatus (Amphibia, Ranidae) through nuclear and mitochondrial DNA analyses. Zootaxa, 1843, 24-34.
188. Shimodaira, H. (2002) An approximately unbiased test of phylogenetic tree selection. Systematic Biology, 51, 492-508. http://dx.doi.org/10.1080/ 10635150290069913
189. Shimodaira, H. & Hasegawa, M. (1999) Multiple comparison of log-likelihoods with applications to phylogenetic inference. Molecular Biology and Evolution, 16, 1114-1116. http://dx.doi.org/10.1093/oxfordjournals.molbev. a026201
190. Simpson, G.G. (1944) Tempo and Mode in Evolution. New York: Columbia University Press. 237 pp.
191. Simpson, G.G. (1961) Principles of Animal Taxonomy. New York: Columbia University Press. 347 pp.
192. Sober, E. (2004) The contest between parsimony and likelihood. Systematic Biology, 53, 644-653. http://dx.doi.org/10.1080/10635150490468657
193. Speybroeck, J., Beukema, W. & Crochet, P.A. (2010) A tentative species list of the European herpetofauna (Amphibia and Reptilia)-an update. Zootaxa, 2492, 1-27.
194. Spinks, P.Q. & Shaffer, H.B. (2009) Conflicting mitochondrial and nuclear phylogenies for the widely disjunct Emys (Testudines: Emydidae) species complex, and what they tell us about biogeography and hybridization. Systematic Biology, 58, 1-20. http://dx.doi.org/10.1093/sysbio/syp005
195. Springer, M.S., Stanhope, M.J., Madsen, O. & de Jong, W.W. (2004) Molecules consolidate the placental mammal tree. Tren d s in Ecology and Evolution, 19, 430-438. http://dx.doi.org/10.1016/j.tree.2004.05.006
196. Stafleu, F.A. (1971) Linnaeus and the Linnaeans: the Spreading of their Ideas in Systematic Botany, 1735-1789. Utrecht: International Association for Plant Taxonomy.
197. Stanley, E.A., Bauer, A., Jackman, T.R., Branch, W.R. & Mouton, P.L.F.N. (2011) Between a rock and a hard polytomy: Rapid radiation in the rupicolous girdled lizards (Squamata: Cordylidae). Molecular Phylogenetics and Evolution, 58, 53-70. http://dx.doi.org/10.1016/j.ympev.2010.08.024
198. Steel, M. & Penny, D. (2000) Parsimony, likelihood, and the role of models in molecular phylogenetics. Molecular Biology and Evolution, 17, 839-850. http://dx.doi.org/10.1093/oxfordjournals.molbev.a026364
199. Stevens, P.F. (1997a) How to interpret botanical classifications- suggestions from history. BioScience, 47, 243-250. http://dx.doi.org/10.2307/ 1313078
200. Stevens, P.F. (1997b) Mind, memory and history: How classifications are shaped by and through time, and some consequences. Zoologica Scripta, 26, 293-301. http://dx.doi.org/10.1111/j.1463-6409.1997.tb00419.x
201. Stuart, B.L., Inger, R.F. & Voris, H.K. (2006) High level of cryptic species diversity revealed by sympatric lineages of Southeast Asian forest frogs. Biology Letters, 2, 470-474. http://dx.doi.org/10.1098/rsbl.2006.0505
202. Stuart, B.L. & Parham, J.F. (2007) Recent hybrid origin of three rare Chinese turtles. Conservation Genetics, 8, 169-175. http://dx.doi.org/10.1007/ s10592-006-9159-0
203. Stuessy, T.F. (1990): Plant Taxonomy. The Systematic Evaluation of Comparative Data. Columbia University Press. http://dx.doi.org/10.2307/2806812
204. Talavera, G., Lukhtanov, V.A., Pierce, N.E. & Vila, R. (2012) Establishing criteria for higher-level classification using molecular data: the systematics of Polyommatus blue butterflies (Lepidoptera, Lycaenidae). Cladistics, in press. http://dx.doi.org/10.1111/j.1096-0031.2012.00421.x
205. Tolley, K.A., Burger, M., Turner, A.A. & Matthee, C.A. (2006) Biogeographic patterns and phylogeography of dwarf chameleons (Bradypodion) in an African biodiversity hotspot. Molecular Ecology, 15, 781-793. http://dx.doi.org/10.1111/j.1365-294X.2006.02836.x
206. Townsend, T.M., Tolley, K.A., Glaw, F., Böhme, W. & Vences, M. (2011) Eastward from Africa: palaeocurrent-mediated chameleon dispersal to the Seychelles islands. Biology Letters, 7, 225-228. http://dx.doi.org/10.1098/rsbl. 2010.0701
207. Townsend, T.M., Vieites, D.R., Glaw, F. & Vences, M. (2009) Testing species-level diversification hypotheses in Madagascar: the case of microendemic Brookesia leaf chameleons. Systematic Biology, 58, 461-656. http://dx.doi.org/10.1093/sysbio/syp073
208. Uetz, P. (2012) The Reptile Database, http://www.reptiliaweb.org, accessed July 2, 2012.
209. Van Bocxlaer, I., Biju, S.D., Loader, S.P. & Bossuyt, F. (2009) Toad radiation reveals into-India dispersal as a source of endemism in the Western Ghats-Sri Lanka biodiversity hotspot. BMC Evolutionary Biology, 9, e131. http://dx.doi.org/10.1186/1471-2148-9-131
210. Van Bocxlaer, I., Loader, S.P., Roelants, K., Biju, S.D., Menegon, M. & Bossuyt, F. (2010) Gradual adaptation toward a rangeexpansion phenotype initiated the global radiation of toads. Science, 327, 679-682. http://dx.doi.org/10.1126/science.1181707
211. Van der Meijden, A., Vences, M., Hoegg, S., Boistel, R., Channing, A. & Meyer, A. (2007) Nuclear gene phylogeny of narrow-mouthed toads (Family: Microhylidae) and a discussion of competing hypotheses concerning their biogeographical origins. Molecular Phylogenetics and Evolution, 44, 1017-1030. http://dx.doi.org/10.1016/j.ympev.2007.02.008
212. Vences, M. (2007) The Amphibian Tree of Life: Ideologie, Chaos oder biologische Realität? Zeitschrift für Feldherpetologie, 14, 153-162.
213. Vences, M., Glaw, F., Kosuch, J., Böhme, W. & Veith, M. (2001) Phylogeny of South American and Malagasy boine snakes: molecular evidence for the validity of Sanzinia and Acrantophis and biogeographic implications. Copeia, 2001, 1151-1154. http://dx.doi.org/10.1643/0045-8511(2001)001[1151:POSAAM]2.0. CO;2
214. Vidal, N., Delmas, A.S., David, P., Cruaud, C., Couloux, A. & Hedges, S.B. (2007) The phylogeny and classification of caenophidian snakes inferred from seven nuclear protein-coding genes. Comptes Rendues Biologies, 330, 182-187. http://dx.doi.org/10.1016/j.crvi.2006.10.001
215. Vidal, N., Marin, J., Morini, M., Donnellan, S., Branch, W.R., Thomas, R., Vences, M., Wynn, A., Cruaud, C. & Hedges, S.B. (2010) Blindsnake evolutionary tree reveals long history on Gondwana. Biology Letters, 6, 558-561. http://dx.doi.org/10.1098/rsbl.2010.0220
216. Vieites, D.R., Wollenberg, K.C., Andreone, F., Köhler, J., Glaw, F. & Vences, M. (2009) Vast underestimation of Madagascar's biodiversity evidenced by an integrative amphibian inventory. Proceedings of the National Academy of Sciences of the U.S.A., 106, 8267-8272. http://dx.doi.org/10.1073/ pnas.0810821106
217. Wägele, J.W. & Mayer, C. (2007) Visualizing differences in phylogenetic information content of alignments and distinction of three classes of long-branch effects. BMC Evolutionary Biology, 7, 147. http://dx.doi.org/10. 1186/1471-2148-7-147
218. Wheeler, Q.D. (2008) Introductory: toward the new taxonomy. In The New. Taxonomy Edited by: Wheeler QD. CRC Press, Taylor and Francis Group, 1-17.
219. Wheeler, Q.D., Knapp, S., Stevenson, D.W., Stevenson, J., Blum, S.D., Boom, B.M., Borisy, G.G., Buizer, J.L., de Carvalho, M. R., Cibrian, A., Donoghue, M.J., Doyle, V., Gerson, E.M., Graham, C.H., Graves, P., Graves, S.J., Guralnick, R.P., Hamilton, A.L., Hanken, J., Law, W., Lipscomb, D.L., Lovejoy, T.E., Miller, H., Miller, J.S., Naeem, S., Novacek, M.J., Page, L.M., Platnick, N.I., Porter-Morgan, H., Raven, P.H., Solis, M.A., Valdecasas, A.G., van der Leeuw, S., Vasco, A., Vermeulen, N., Vogel, J. & Woolley, J.B. (2012) Mapping the biosphere: Exploring species to understand the origin, organization, and sustainability of biodiversity. Systematics and Biodiversity, 10, 1-20. http://dx.doi.org/10.1080/14772000.2012.665095
220. Wheeler, Q.D., Raven, P.H. & Wilson, E.O. (2004) Taxonomy: Impediment or expedient? Science, 303, 285. http://dx.doi.org/10.1126/science.303.5656.285
221. Wheeler, W.C. (1992) Extinction, sampling, and molecular phylogenetics. In: M.J. Novacek and Q.D. Wheeler (Eds.), Extinction and Phylogeny. Columbia University Press, New York, U.S.A., pp. 205-215.
222. Wermter, J., Tomanek, K. & Hahn, U. (2009) High-performance gene name normalization with GeNo. Bioinformatics, 25, 815-821. http://dx.doi.org/10. 1093/bioinformatics/btp071
223. Wiens, J.J. (2007) Book review: The amphibian tree of life. Quarterly Review of Biology, 82, 55-56. http://dx.doi.org/10.1086/513362
224. Wiens, J.J., Kuczynski, C.A. & Stephens, P.R. (2010) Discordant mitochondrial and nuclear gene phylogenies in emydid turtles: implications for speciation and conservation. Biological Journal of the Linnean Society, 99, 445-461. http://dx.doi.org/10.1111/j.1095-8312.2009.01342.x
225. Wiley, E.O. (1978) The evolutionary species concept reconsidered. Systematic Zoology, 27, 17-26. http://dx.doi.org/10.2307/2412809
226. Wiley, E.O. (1979) An annotated Linnaean hierarchy, with comments on natural taxa and competing systems. Systematic Zoology, 28, 308-337. http://dx.doi.org/10.2307/2412585
227. Wiley, E.O. & Lieberman, B.S. (2011) Phylogenetics. The Theory of Phylogenetic Systematics. New Jersey: Wiley-Blackwell.
228. Wilkinson, M., San Mauro, D., Sherratt, E. & Gower, D.J. (2011) A nine-family classification of caecilians (Amphibia: Gymnophiona). Zootaxa, 2874, 41-64.
229. Wilson, E.O. (2003) The encyclopedia of life. Trends in Ecology and Evolution, 18, 77-80. http://dx.doi.org/10.1016/S0169-5347(02)00040-X
230. Wilson, E.O. (2004) Taxonomy as a fundamental discipline. Philosophical Transactions of the Royal Society B, 359, 739. http://dx.doi.org/10.1098/rstb. 2003.1440
231. Wilson, E.O. & Brown, W.L. (1953) The subspecies concept and its taxonomic application. Systematic Zoology, 2: 97-111. http://dx.doi.org/10.2307/ 2411818
232. Wood, B.A. & Collard, M. (1999) The human genus. Science, 284, 65-71. http://dx.doi.org/10.1126/science.284.5411.65
233. Zachos, F.E. (2011) Linnaean ranks, temporal banding, and time-clipping: Why not slaughter the sacred cow? Biological Journal of the Linnean Society, 103, 732-734. http://dx.doi.org/10.1111/j.1095-8312.2011.01711.x
234. Zander, R.H. (2004) Minimal values for reliability of bootstrap and jackknife proportions, Decay Index, and Bayesian posterior probability. PhyloInformatics, 2, 1-13.
235. Zhang, P. & Wake, D.B. (2009) Higher-level salamander relationships and divergence dates inferred from complete mitochondrial genomes. Molecular Phylogenetics and Evolution, 53, 492-508. http://dx.doi.org/10.1016/j.ympev. 2009.07.010
236. Zhang, Z.Q. (2008) Contributing to the progress of descriptive taxonomy. Zootaxa, 1968, 65-68.
237. Zwickl, D.J. & Hillis, D.M. (2002) Increased taxon sampling greatly reduces phylogenetic error. Systematic Biology, 51, 588-598. http://dx.doi.org/10.1080/10635150290102339