Adaptive Evolution and Functional Redesign of Core Metabolic Proteins in Snakes
暂无分享,去创建一个
Todd A. Castoe | Zhengyuan O. Wang | David D. Pollock | Wanjun Gu | D. Pollock | W. Gu | T. Castoe | Zhi J. Jiang | Zhi-Jian Jiang
[1] Y. Kumazawa. Mitochondrial DNA sequences of five squamates: phylogenetic affiliation of snakes. , 2004, DNA research : an international journal for rapid publication of reports on genes and genomes.
[2] S. Eddy,et al. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. , 1997, Nucleic acids research.
[3] C. Gissi,et al. Nucleotide Substitution Rate of Mammalian Mitochondrial Genomes , 1999, Journal of Molecular Evolution.
[4] J. A. McGuire,et al. Comparative mitochondrial genomics of snakes: extraordinary substitution rate dynamics and functionality of the duplicate control region , 2007, BMC Evolutionary Biology.
[5] Z. Yang,et al. Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models. , 2000, Molecular biology and evolution.
[6] Jean L. Chang,et al. Initial sequence of the chimpanzee genome and comparison with the human genome , 2005, Nature.
[7] E. Louis,et al. Molecular phylogenetics of squamata: the position of snakes, amphisbaenians, and dibamids, and the root of the squamate tree. , 2004, Systematic biology.
[8] M. Nishida,et al. Gene rearrangements in snake mitochondrial genomes: highly concerted evolution of control-region-like sequences duplicated and inserted into a tRNA gene cluster. , 1996, Molecular biology and evolution.
[9] Ziheng Yang,et al. PAML: a program package for phylogenetic analysis by maximum likelihood , 1997, Comput. Appl. Biosci..
[10] John P. Huelsenbeck,et al. MrBayes 3: Bayesian phylogenetic inference under mixed models , 2003, Bioinform..
[11] Bronwen L. Aken,et al. Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences , 2007, Nature.
[12] J. Holman. Fossil snakes of North America : origin, evolution, distribution, paleoecology , 2000 .
[13] T. Tomizaki,et al. Structures of metal sites of oxidized bovine heart cytochrome c oxidase at 2.8 A , 1995, Science.
[14] W R Taylor,et al. Coevolving protein residues: maximum likelihood identification and relationship to structure. , 1999, Journal of molecular biology.
[15] M. Suematsu,et al. The proton pumping pathway of bovine heart cytochrome c oxidase , 2007, Proceedings of the National Academy of Sciences.
[16] 宁北芳,et al. 疟原虫var基因转换速率变化导致抗原变异[英]/Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A , 2005 .
[17] Y. Kumazawa,et al. Complete Mitochondrial DNA Sequences of Six Snakes: Phylogenetic Relationships and Molecular Evolution of Genomic Features , 2005, Journal of Molecular Evolution.
[18] S. Secor,et al. Adaptive responses to feeding in Burmese pythons: pay before pumping. , 1995, The Journal of experimental biology.
[19] R. Adkins,et al. Evolution of eutherian cytochrome c oxidase subunit II: heterogeneous rates of protein evolution and altered interaction with cytochrome c. , 1996, Molecular biology and evolution.
[20] S. Yoshikawa,et al. The low-spin heme of cytochrome c oxidase as the driving element of the proton-pumping process , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[21] R. Christensen,et al. Physicochemical evolution and molecular adaptation of the cetacean and artiodactyl cytochrome b proteins. , 2005, Molecular biology and evolution.
[22] Ruta,et al. Nice snake, shame about the legs. , 2000, Trends in ecology & evolution.
[23] A. F. Bennett,et al. Physiology: Postprandial cardiac hypertrophy in pythons , 2005, Nature.
[24] Vincent J. Lynch,et al. Inventing an arsenal: adaptive evolution and neofunctionalization of snake venom phospholipase A2 genes , 2007, BMC Evolutionary Biology.
[25] T. Andrews,et al. Accelerated Evolution of Cytochrome b in Simian Primates: Adaptive Evolution in Concert with Other Mitochondrial Proteins? , 1998, Journal of Molecular Evolution.
[26] Allan C. Wilson,et al. Adaptive evolution in the stomach lysozymes of foregut fermenters , 1987, Nature.
[27] T. Tomizaki,et al. The Whole Structure of the 13-Subunit Oxidized Cytochrome c Oxidase at 2.8 Å , 1996, Science.
[28] S. Hedges,et al. The phylogeny of squamate reptiles (lizards, snakes, and amphisbaenians) inferred from nine nuclear protein-coding genes. , 2005, Comptes rendus biologies.
[29] D. Wildman,et al. Molecular evolution of aerobic energy metabolism in primates. , 2001, Molecular phylogenetics and evolution.
[30] Zhengyuan O. Wang,et al. Context dependence and coevolution among amino acid residues in proteins. , 2005, Methods in enzymology.
[31] R. Gennis,et al. Possible proton relay pathways in cytochrome c oxidase. , 1995, Proceedings of the National Academy of Sciences of the United States of America.
[32] S. Muse,et al. A likelihood approach for comparing synonymous and nonsynonymous nucleotide substitution rates, with application to the chloroplast genome. , 1994, Molecular biology and evolution.
[33] D. Penny,et al. Two new avian mitochondrial genomes (penguin and goose) and a summary of bird and reptile mitogenomic features. , 2003, Gene.
[34] S. Secor,et al. A vertebrate model of extreme physiological regulation , 1998, Nature.
[35] S. Hedges,et al. Early evolution of the venom system in lizards and snakes , 2006, Nature.
[36] B. Schmidt,et al. Role of the conserved arginine pair in proton and electron transfer in cytochrome C oxidase. , 2004, Biochemistry.
[37] J. Faith,et al. Evolution of base-substitution gradients in primate mitochondrial genomes. , 2005, Genome research.
[38] B. Fry. From genome to "venome": molecular origin and evolution of the snake venom proteome inferred from phylogenetic analysis of toxin sequences and related body proteins. , 2005, Genome research.
[39] Harry W. Greene,et al. Snakes: The Evolution of Mystery in Nature , 1997 .
[40] S. Muse,et al. Site-to-site variation of synonymous substitution rates. , 2005, Molecular biology and evolution.
[41] J. Thompson,et al. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. , 1997, Nucleic acids research.
[42] Sergei L. Kosakovsky Pond,et al. HyPhy: hypothesis testing using phylogenies , 2005, Bioinform..
[43] R. Gennis,et al. Substitution of asparagine for aspartate-135 in subunit I of the cytochrome bo ubiquinol oxidase of Escherichia coli eliminates proton-pumping activity. , 1993, Biochemistry.
[44] M. McCue. Snakes survive starvation by employing supply- and demand-side economic strategies. , 2007, Zoology.
[45] A. Dalziel,et al. Molecular Evolution of Cytochrome c Oxidase in High-Performance Fish (Teleostei: Scombroidei) , 2006, Journal of Molecular Evolution.
[46] R. Nielsen,et al. Codon-substitution models for detecting molecular adaptation at individual sites along specific lineages. , 2002, Molecular biology and evolution.