a phylogenomic approach to vertebrate phylogeny supports a turtle-archosaur affinity and a possible paraphyletic lissamphibiaphylogenomic脊椎动物系统学方法支持turtle-archosaur亲和力和可能的原生动物无甲亚纲.pdfVIP

A Phylogenomic Approach to Vertebrate Phylogeny Supports a Turtle-Archosaur Affinity and a Possible Paraphyletic Lissamphibia Jonathan J. Fong1,2,3*, Jeremy M. Brown2,4, Matthew K. Fujita1,2,5,6, Bastien Boussau2,7 1 Museum of Vertebrate Zoology, University of California, Berkeley, California, United States of America, 2 Department of Integrative Biology, University of California, Berkeley, California, United States of America, 3 College of Natural Sciences, Seoul National University, Seoul, Republic of Korea, 4 Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana, United States of America, 5 Museum of Comparative Zoology Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, United States of America, 6 Department of Biology, University of Texas-Arlington, Arlington, Texas, United States of ´ ´ America, 7 Laboratorie de Biometrie et Biologie Evolutive, Universite de Lyon, Villeurbanne, France Abstract In resolving the vertebrate tree of life, two fundamental questions remain: 1) what is the phylogenetic position of turtles within amniotes, and 2) what are the relationships between the three major lissamphibian (extant amphibian) groups? These relationships have historically been difficult to resolve, with five different hypotheses proposed for turtle placement, and four proposed branching patterns within Lissamphibia. We compiled a large cDNA/EST dataset for vertebrates (75 genes for 129 taxa) to address these outstanding questions. Gene-specific phylogenetic analyses revealed a great deal of variation in preferred topology, resulting in topologically ambiguous conclusions from the combined dataset. Due to consistent preferences for the same divergent topologies across genes,