Basal actinopterygian relationships: a mitogenomic perspective on the phylogeny of the "ancient fish".

[1]  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.

[2]  L. Grande,et al.  An overview of Acipenseriformes , 1997, Environmental Biology of Fishes.

[3]  R. Zardoya,et al.  The complete nucleotide sequence of the mitochondrial DNA genome of the rainbow trout, Oncorhynchus mykiss , 1995, Journal of Molecular Evolution.

[4]  Ziheng Yang.  Estimating the pattern of nucleotide substitution , 1994, Journal of Molecular Evolution.

[5]  T. Lo,et al.  The complete nucleotide sequence and gene organization of carp (Cyprinus carpio) mitochondrial genome , 1994, Journal of Molecular Evolution.

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

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

[8]  J. Inoue,et al.  Phylogeny of the basal teleosts, with special reference to the Elopomorpha. , 2001 .

[9]  M. Miya,et al.  Mitogenomic exploration of higher teleostean phylogenies: a case study for moderate-scale evolutionary genomics with 38 newly determined complete mitochondrial DNA sequences. , 2001, Molecular biology and evolution.

[10]  J. Inoue,et al.  Complete mitochondrial DNA sequence of the Japanese anchovy Engraulis japonicus , 2001 .

[11]  S. Brenner,et al.  Molecular synapomorphies resolve evolutionary relationships of extant jawed vertebrates , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[12]  M. Miya,et al.  Complete mitochondrial DNA sequence of Aulopus japonicus (Teleostei: Aulopiformes), a basal Eurypterygii: longer DNA sequences and higher-level relationships , 2001, Ichthyological Research.

[13]  J. Inoue,et al.  A mitogenomic perspective on the basal teleostean phylogeny: resolving higher-level relationships with longer DNA sequences. , 2001, Molecular phylogenetics and evolution.

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

[15]  Mutsumi Nishida,et al.  Complete mitochondrial DNA sequence of ayu Plecoglossus altivelis , 2001 .

[16]  W. W. Dimmick.  Spliceosomal Introns and Fish Phylogeny: A Critical Reanalysis , 2001, Copeia.

[17]  J. Inoue,et al.  Complete Mitochondrial DNA Sequence of Conger myriaster (Teleostei: Anguilliformes): Novel Gene Order for Vertebrate Mitochondrial Genomes and the Phylogenetic Implications for Anguilliform Families , 2001, Journal of Molecular Evolution.

[18]  J. Inoue,et al.  Complete mitochondrial DNA sequence of the Japanese eel Anguilla japonica , 2001 .

[19]  M. Miya,et al.  Use of mitogenomic information in teleostean molecular phylogenetics: a tree-based exploration under the maximum-parsimony optimality criterion. , 2000, Molecular phylogenetics and evolution.

[20]  J. Inoue,et al.  Complete mitochondrial DNA sequence of the Japanese sardine Sardinops melanostictus , 2000 .

[21]  W. Kress,et al.  Angiosperm phylogeny inferred from 18S rDNA, rbcL, and atpB sequences , 2000 .

[22]  M. Miya,et al.  Molecular Systematics of the Deep-Sea Fish Genus Gonostoma (Stomiiformes: Gonostomatidae): Two Paraphyletic Clades and Resurrection of Sigmops , 2000, Copeia.

[23]  M. Okiyama,et al.  Molecular phylogeny and larval morphological diversity of the lanternfish genus Hygophum (Teleostei: Myctophidae). , 2000, Molecular phylogenetics and evolution.

[24]  M. Nishida,et al.  Mitochondrial Molecular Clocks and the Origin of Euteleostean Biodiversity: Familial Radiation of Perciforms May Have Predated the Cretaceous/Tertiary Boundary , 2000 .

[25]  Masahiro Kato.  The Biology of Biodiversity , 2000, Springer Japan.

[26]  C. Hurst,et al.  The complete mitochondrial DNA sequence of the Atlantic salmon, Salmo salar. , 1999, Gene.

[27]  M. Miya,et al.  Organization of the Mitochondrial Genome of a Deep-Sea Fish, Gonostoma gracile (Teleostei: Stomiiformes): First Example of Transfer RNA Gene Rearrangements in Bony Fishes , 1999, Marine Biotechnology.

[28]  S. Brenner,et al.  Late changes in spliceosomal introns define clades in vertebrate evolution. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[29]  P. Waddell,et al.  The complete mitochondrial DNA sequence of the shark Mustelus manazo: evaluating rooting contradictions to living bony vertebrates. , 1998, Molecular biology and evolution.

[30]  P. Janvier,et al.  The complete nucleotide sequence of the mitochondrial DNA of the dogfish, Scyliorhinus canicula. , 1998, Genetics.

[31]  M. Miya,et al.  Molecular phylogeny and evolution of the deep-sea fish genus Sternoptyx. , 1998, Molecular Phylogenetics and Evolution.

[32]  Carol A. Stepien,et al.  Molecular systematics of fishes , 1998 .

[33]  N. M. Brooke,et al.  A molecular timescale for vertebrate evolution , 1998, Nature.

[34]  D. Hillis,et al.  Taxonomic sampling, phylogenetic accuracy, and investigator bias. , 1998, Systematic biology.

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

[36]  Bruce B. Collette,et al.  The Diversity of Fishes , 1997 .

[37]  A. Meyer,et al.  Molecular Phylogenetic Information on the Identity of the Closest Living Relative(s) of Land Vertebrates , 1997, Naturwissenschaften.

[38]  M. Stiassny,et al.  Interrelationships of fishes , 1997 .

[39]  W. John Kress,et al.  Angiosperm Phylogeny Inferred from 18S Ribosomal DNA Sequences , 1997 .

[40]  Carol A. Stepien,et al.  CHAPTER 1 – Molecules and Morphology in Studies of Fish Evolution , 1997 .

[41]  A. Meyer,et al.  The complete mitochondrial DNA sequence of the bichir (Polypterus ornatipinnis), a basal ray-finned fish: ancient establishment of the consensus vertebrate gene order. , 1996, Genetics.

[42]  A. Meyer,et al.  Phylogenetic performance of mitochondrial protein-coding genes in resolving relationships among vertebrates. , 1996, Molecular biology and evolution.

[43]  J. Farris,et al.  PARSIMONY JACKKNIFING OUTPERFORMS NEIGHBOR‐JOINING , 1996, Cladistics : the international journal of the Willi Hennig Society.

[44]  B. Gardiner.  Chapter 6 – Interrelationships of Basal Neopterygians , 1996 .

[45]  L. Grande.  Chapter 5 – Interrelationships of Acipenseriformes, with Comments on “Chondrostei” , 1996 .

[46]  A. Meyer.  Molecular evidence on the origin of tetrapods and the relationships of the coelacanth. , 1995, Trends in ecology & evolution.

[47]  M. Stoneking,et al.  Complete mitochondrial genome amplification , 1994, Nature Genetics.

[48]  H Philippe,et al.  Species sampling has a major impact on phylogenetic inference. , 1993, Molecular phylogenetics and evolution.

[49]  G. Lecointre,et al.  A 28S rRNA-based phylogeny of the gnathostomes: first steps in the analysis of conflict and congruence with morphologically based cladograms. , 1993, Molecular phylogenetics and evolution.

[50]  David M. Williams,et al.  Congruence Between Molecular and Morphological Phylogenies , 1993 .

[51]  P. C. Huang,et al.  The complete nucleotide sequence of the Crossostoma lacustre mitochondrial genome: conservation and variations among vertebrates. , 1992, Nucleic acids research.

[52]  M. Donoghue,et al.  Phylogenetic relationships of Dipsacales based on rbcl sequences , 1992 .

[53]  R. Harrison,et al.  Phylogenetic relationships of neopterygian fishes, inferred from mitochondrial DNA sequences. , 1991, Molecular biology and evolution.

[54]  P. Olsen,et al.  Morphology of the Semionotus elegans species group from the Early Jurassic part of the Newark Supergroup of eastern North America with comments on the Family Semionotidae (Neopterygii) , 1991 .

[55]  J. Neigel,et al.  GENE GENEALOGIES WITHIN THE ORGANISMAL PEDIGREES OF RANDOM‐MATING POPULATIONS , 1990, Evolution; international journal of organic evolution.

[56]  K. Bremer.  THE LIMITS OF AMINO ACID SEQUENCE DATA IN ANGIOSPERM PHYLOGENETIC RECONSTRUCTION , 1988, Evolution; international journal of organic evolution.

[57]  W. Burggren,et al.  The Biology and Evolution of Lungfishes , 1988 .

[58]  Robert L. Carroll,et al.  Vertebrate Paleontology and Evolution , 1988 .

[59]  J. S. Nelson.  The next 25 years: vertebrate systematics , 1987 .

[60]  J. Maisey.  HEADS AND TAILS: A CHORDATE PHYLOGENY , 1986, Cladistics : the international journal of the Willi Hennig Society.

[61]  P. Olsen.  The skull and pectoral girdle of the parasemionotid fish Watsonulus eugnathoides from the Early Triassic Sakamena Group of Madagascar, with comments on the relationships of the holostean fishes , 1984 .

[62]  A. R. Templeton,et al.  PHYLOGENETIC INFERENCE FROM RESTRICTION ENDONUCLEASE CLEAVAGE SITE MAPS WITH PARTICULAR REFERENCE TO THE EVOLUTION OF HUMANS AND THE APES , 1983, Evolution; international journal of organic evolution.

[63]  George V. Lauder,et al.  The evolution and interrelationships of the actinopterygian fishes , 1983 .

[64]  C. Patterson.  Morphology and Interrelationships of Primitive Actinopterygian Fishes , 1982 .

[65]  E. Wiley,et al.  The Phylogeny and Biogeography of Fossil and Recent Gars (Actinopterygii: Lepisosteidae) , 1978 .

[66]  J. S. Nelson,et al.  Fishes of the world. , 1978 .

[67]  P. Greenwood,et al.  Interrelationships of Fishes , 1974 .

[68]  B. Gardiner.  The significance of the preoperculum in actinopterygian evolution , 1967 .

[69]  Stanley H. Weitzman,et al.  Phyletic studies of teleostean fishes, with a provisional classification of living forms. Bulletin of the AMNH ; v. 131, article 4 , 1967 .

[70]  B. Gardiner.  A revision of certain actinopterygian and coelacanth fishes, chiefly from the Lower Lias , 1960 .

[71]  L. Berg.  Classification of fishes both recent and fossil , 1947 .