Vertebrate phylogeny

A phylogenetic tree in Newick format, relating vertebrate species whose genomes have been sequenced.

The branch lengths are often very rough estimates, but the topology should be accurate.

References

Afrotheria

• Seiffert, Erik R. “A New Estimate of Afrotherian Phylogeny Based on Simultaneous Analysis of Genomic, Morphological, and Fossil Evidence.” BMC Evolutionary Biology 7, no. 1 (2007): 224. doi:10.1186/1471-2148-7-224.
• Murphy, W. J., Eduardo Eizirik, Stephen J. O'Brien, Ole Madsen, Mark Scally, Christophe J. Douady, Emma Teeling, Oliver A. Ryder, Michael J. Stanhope, Wilfried W. de Jong, Mark S. Springer. “Resolution of the Early Placental Mammal Radiation Using Bayesian Phylogenetics.” Science 294, no. 5550 (December 14, 2001): 2348–2351. doi:10.1126/science.1067179.
• Nishihara, H., Yoko Satta, Masato Nikaido, J. G. M. Thewissen, Michael J. Stanhope, and Norihiro Okada. “A Retroposon Analysis of Afrotherian Phylogeny.” Molecular Biology and Evolution 22, no. 9 (May 18, 2005): 1823–1833. doi:10.1093/molbev/msi179.

Birds

• Seibold, I., A. J. Helbig, and M. Wink. “Molecular Systematics of Falcons (family Falconidae).” Naturwissenschaften 80, no. 2 (February 1993): 87–90. doi:10.1007/bf01140425.
• Lerner, Heather R.L., and David P. Mindell. “Phylogeny of Eagles, Old World Vultures, and Other Accipitridae Based on Nuclear and Mitochondrial DNA.” Molecular Phylogenetics and Evolution 37, no. 2 (November 2005): 327–346. doi:10.1016/j.ympev.2005.04.010.
• Johansson, Ulf S., Jon Fjeldså, and Rauri C.K. Bowie. “Phylogenetic Relationships Within Passerida (Aves: Passeriformes): A Review and a New Molecular Phylogeny Based on Three Nuclear Intron Markers.” Molecular Phylogenetics and Evolution 48, no. 3 (September 2008): 858–876. doi:10.1016/j.ympev.2008.05.029.
• Haring, Elisabeth, Barbara Däubl, Wilhelm Pinsker, Alexey Kryukov, and Anita Gamauf. “Genetic Divergences and Intraspecific Variation in Corvids of the Genus Corvus (Aves: Passeriformes: Corvidae) - a First Survey Based on Museum Specimens.” Journal of Zoological Systematics and Evolutionary Research 50, no. 3 (May 22, 2012): 230–246. doi:10.1111/j.1439-0469.2012.00664.x.
• Jarvis, E. D., S. Mirarab, A. J. Aberer, B. Li, P. Houde, C. Li, S. Y. W. Ho, et al. “Whole-Genome Analyses Resolve Early Branches in the Tree of Life of Modern Birds.” Science 346, no. 6215 (December 11, 2014): 1320–1331. doi:10.1126/science.1253451.
• Wright, T. F., E. E. Schirtzinger, T. Matsumoto, J. R. Eberhard, G. R. Graves, J. J. Sanchez, S. Capelli, et al. “A Multilocus Molecular Phylogeny of the Parrots (Psittaciformes): Support for a Gondwanan Origin During the Cretaceous.” Molecular Biology and Evolution 25, no. 10 (July 18, 2008): 2141–2156. doi:10.1093/molbev/msn160.
• Russello, Michael A, and George Amato. “A Molecular Phylogeny of Amazona: Implications for Neotropical Parrot Biogeography, Taxonomy, and Conservation.” Molecular Phylogenetics and Evolution 30, no. 2 (February 2004): 421–437. doi:10.1016/s1055-7903(03)00192-1.

Other Sauria

• Green, R. E., E. L. Braun, J. Armstrong, D. Earl, N. Nguyen, G. Hickey, M. W. Vandewege, et al. “Three Crocodilian Genomes Reveal Ancestral Patterns of Evolution Among Archosaurs.” Science 346, no. 6215 (December 11, 2014): 1254449–1254449. doi:10.1126/science.1254449.
• Pyron, R, Frank T Burbrink, and John J Wiens. “A Phylogeny and Revised Classification of Squamata, Including 4161 Species of Lizards and Snakes.” BMC Evolutionary Biology 13, no. 1 (2013): 93. doi:10.1186/1471-2148-13-93.