Complete Mitochondrial DNA Sequences of Six Snakes: Phylogenetic Relationships and Molecular Evolution of Genomic Features

[1]  Yuichiro Hara,et al.  Sister group relationship of turtles to the bird-crocodilian clade revealed by nuclear DNA-coded proteins. , 2005, Molecular biology and evolution.

[2]  S. Asakawa,et al.  Strand-specific nucleotide composition bias in echinoderm and vertebrate mitochondrial genomes , 1991, Journal of Molecular Evolution.

[3]  H. Kishino,et al.  Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea , 1989, Journal of Molecular Evolution.

[4]  Allan C. Wilson,et al.  Mitochondrial DNA sequences of primates: Tempo and mode of evolution , 2005, Journal of Molecular Evolution.

[5]  J. Felsenstein.  Evolutionary trees from DNA sequences: A maximum likelihood approach , 2005, Journal of Molecular Evolution.

[6]  Michael P. Cummings,et al.  PAUP* [Phylogenetic Analysis Using Parsimony (and Other Methods)] , 2004 .

[7]  N. Vidal,et al.  New insights into the early history of snakes inferred from two nuclear genes. , 2004, Molecular phylogenetics and evolution.

[8]  M. Nishida,et al.  Sequence evolution of mitochondrial tRNA genes and deep-branch animal phylogenetics , 1993, Journal of Molecular Evolution.

[9]  Y. Kumazawa,et al.  Mitochondrial genome of the Komodo dragon: efficient sequencing method with reptile-oriented primers and novel gene rearrangements. , 2004, DNA research : an international journal for rapid publication of reports on genes and genomes.

[10]  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.

[11]  Andrew P. Martin,et al.  THE SIMPLE FOOL’S GUIDE TO PCR , 2004 .

[12]  E. Tibbetts,et al.  Molecular systematics of primary reptilian lineages and the tuatara mitochondrial genome. , 2003, Molecular phylogenetics and evolution.

[13]  O. Rieppel,et al.  THE ANATOMY AND RELATIONSHIPS OF HAASIOPHIS TERRASANCTUS, A FOSSIL SNAKE WITH WELL-DEVELOPED HIND LIMBS FROM THE MID-CRETACEOUS OF THE MIDDLE EAST , 2003 .

[14]  Derrick J. Zwickl,et al.  Phylogenetic relationships of the dwarf boas and a comparison of Bayesian and bootstrap measures of phylogenetic support. , 2002, Molecular phylogenetics and evolution.

[15]  S. Hedges,et al.  Higher-level relationships of snakes inferred from four nuclear and mitochondrial genes. , 2002, Comptes rendus biologies.

[16]  R. Lawson,et al.  Snake phylogeny: evidence from nuclear and mitochondrial genes. , 2002, Molecular phylogenetics and evolution.

[17]  Michael S. Y. Lee,et al.  Snake phylogeny based on osteology, soft anatomy and ecology , 2002, Biological reviews of the Cambridge Philosophical Society.

[18]  Graziano Pesole,et al.  Mitochondrial DNA in metazoa: degree of freedom in a frozen event. , 2002, Gene.

[19]  D. Swofford.  PAUP*: Phylogenetic analysis using parsimony (*and other methods), Version 4.0b10 , 2002 .

[20]  John P. Huelsenbeck,et al.  MRBAYES: Bayesian inference of phylogenetic trees , 2001, Bioinform..

[21]  A. Janke,et al.  The mitochondrial genomes of the iguana (Iguana iguana) and the caiman (Caiman crocodylus): implications for amniote phylogeny , 2001, Proceedings of the Royal Society of London. Series B: Biological Sciences.

[22]  A. Meyer,et al.  Mitochondrial evidence on the phylogenetic position of caecilians (Amphibia: Gymnophiona). , 2000, Genetics.

[23]  Michael S. Y. Lee.  Soft anatomy, diffuse homoplasy, and the relationships of lizards and snakes , 2000 .

[24]  Hidetoshi Shimodaira,et al.  Multiple Comparisons of Log-Likelihoods with Applications to Phylogenetic Inference , 1999, Molecular Biology and Evolution.

[25]  J. Boore.  Animal mitochondrial genomes. , 1999, Nucleic acids research.

[26]  M. Nishida,et al.  The complete nucleotide sequence of a snake (Dinodon semicarinatus) mitochondrial genome with two identical control regions. , 1998, Genetics.

[27]  David Posada,et al.  MODELTEST: testing the model of DNA substitution , 1998, Bioinform..

[28]  J. Thompson,et al.  The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. , 1997, Nucleic acids research.

[29]  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.

[30]  K. Strimmer,et al.  Quartet Puzzling: A Quartet Maximum-Likelihood Method for Reconstructing Tree Topologies , 1996 .

[31]  J. Adachi,et al.  MOLPHY version 2.3 : programs for molecular phylogenetics based on maximum likelihood , 1996 .

[32]  M. Nishida,et al.  Variations in mitochondrial tRNA gene organization of reptiles as phylogenetic markers. , 1995, Molecular biology and evolution.

[33]  E. Arévalo,et al.  Support for the hypothesis of anguimorph ancestry for the suborder Serpentes from phylogenetic analysis of mitochondrial DNA sequences. , 1995, Molecular phylogenetics and evolution.

[34]  S. Hedges,et al.  Higher-level snake phylogeny inferred from mitochondrial DNA sequences of 12S rRNA and 16S rRNA genes. , 1995, Molecular biology and evolution.

[35]  D. Clayton.  Transcription and replication of animal mitochondrial DNAs. , 1992, International review of cytology.

[36]  D. Wolstenholme,et al.  Animal mitochondrial DNA: structure and evolution. , 1992, International review of cytology.

[37]  S. Pääbo,et al.  DNA damage promotes jumping between templates during enzymatic amplification. , 1990, The Journal of biological chemistry.

[38]  D. Crews,et al.  Snakes: Ecology and Evolutionary Biology , 2002 .

[39]  J. E. Cadle.  Phylogenetic Relationships Among Advanced Snakes: A Molecular Perspective , 1988 .

[40]  N. Saitou,et al.  The neighbor-joining method: a new method for reconstructing phylogenetic trees. , 1987, Molecular biology and evolution.

[41]  G. Gutman,et al.  Slipped-strand mispairing: a major mechanism for DNA sequence evolution. , 1987, Molecular biology and evolution.

[42]  A. Bellairs,et al.  Morphology and biology of reptiles , 1978 .

[43]  G. Underwood.  A contribution to the classification of snakes , 1967 .

[44]  C. M. Bogert,et al.  The systematic position of Lanthanotus and the affinities of the anguinomorphan lizards. Bulletin of the AMNH ; v. 105, article 1 , 2016 .