The phylogeny of echinoderm classes based on mitochondrial gene arrangements (original) (raw)
References
Anderson S, Banker AT, Barrell BG, deBruijn MHL, Coulson AR, Drouin J, Eperon IC, Nierlich DP, Roe BA, Sanger F, Schreier PH, Smith AJH, Staden R, Young IG (1981) Sequence and organization of the human mitochondrial genome. Nature 290:457–465 Google Scholar
Anderson S, deBruijn MHL, Coulson AR, Eperon IC, Sanger F, Young IG (1982) The complete sequence of bovine mtDNA: conserved features of the mammalian mitochondrial genome. J Mol Biol 156:683–717 Google Scholar
Arnason U, Gullber A, Widegren B (1991) The complete nucleotide sequence of the mitochondrial DNA of the fin whale,Balaenoptera physalus. J Mol Evol 33:556–568 Google Scholar
Arnason U, Johnsson E (1992) The complete mitochondrial DNA sequence of the harbor seal,Phoca vitulina. J Mol Evol 34:493–505 Google Scholar
Asakawa S, Kumazawa Y, Araki T, Himeno H, Miura K, Watanabe K (1991) Strand-specific nucleotide composition bias in echinoderm and vertebrate mitochondrial genomes. J Mol Evol 32:511–520 Google Scholar
Baker AN, Rowe FWE, Clark HES (1986) A new class of Echinodermata from New Zealand. Nature 31:862–864 Google Scholar
Bibb MJ, Van Etten RA, Wright CT, Walberg MW, Clayton DA (1981) Sequence and gene organization of mouse mtDNA. Cell 26:167–180 Google Scholar
Blake DB (1987) A classification and phylogeny of postPalaeozoic sea stars (Asteroidea:Echinodermata). J Nat Hist 21:481–528 Google Scholar
Brown WM (1985) The mitochondrial genome of animals. In: MacIntyre RJ (ed) Molecular evolutionary genetics. Plenum, New York, pp 95–130 Google Scholar
Buroker NE, Brown JR, Gilbert TA, O'Hara PJ, Beckenbach AT, Thomas WK, Smith MJ (1990) Length heteroplasmy of sturgeon mtDNA: an illegitimate elongation model. Genetics 124:157–163 Google Scholar
Cabot EL, Beckenbach AT (1989) Simultaneous editing of multiple nucleic acid and protein sequences with ESEE. CABIOS 5:233–234. Google Scholar
Cantatore P, Roberti M, Morisco P, Rainaldi G, Gadaleta M, Saccone C (1987a) A novel gene order in the_Paracentrotus lividus_ mitochondrial genome. Gene 53:41–54 Google Scholar
Cantatore P, Gadaleta M, Robert M, Saccone C, Wilson AC (1987b) Duplication and remoulding of transfer RNA genes during the evolutionary rearrangement of mitochondrial genomes. Nature 32:853–855 Google Scholar
Cantatore P, Roberti M, Rainaldi G, Gadaleta M, Saccone C (1989) The complete nucleotide sequence, gene organization, and genetic code of the mitochondrial genome of_Paracentrotus lividus_. J Biol Chem 264:10965–10975 Google Scholar
Clary DO, Wolstenholme DR (1985) The mtDNA molecule of_Drosophila yakuba:_ nucleotide sequence, gene organization, and genetic code. J Mol Evol 22:252–271 Google Scholar
De Giorgi C, Lanave C, Musci D, Saccone C (1991) Mitochondrial DNA in the sea urchin_Arbacia lixula:_ evolutionary inferences from nucleotide sequence analysis. Mol Biol Evol 8:515–529 Google Scholar
Desjardins P, Morais R (1990) Sequence and gene organization of the chicken mitochondrial genome. A novel gene order in higher vertebrates. J Mol Biol 212:599–634 Google Scholar
Desjardins P, Morais R (1991) Nucleotide sequence and evolution of coding and noncoding regions of a quail mitochondrial genome. J Mol Evol 32:153–161 Google Scholar
Durham JW, et al (1966) Part U, Echinodermata 3. In: Moore RC (ed) Treatise on invertebrate palaeontology. University of Kansas Press, Lawrence, pp 1–366 Google Scholar
Fell HB (1982) Echinodermata. In: Parker SP (ed) Synopsis and classification of living organisms. McGraw-Hill, New York, pp 785–813 Google Scholar
Gadaleta G, Pepe G, DeCandia G, Quagliariello C, Sbisa E, Saccone C (1989) The complete nucleotide sequence of the_Rattus norvegicus_ mitochondrial genome: cryptic signals revealed by comparative analysis between vertebrates. J Mol Evol 28:497–516 Google Scholar
Hattori M, Sakaki Y (1986) Dideoxy sequencing method using denatured plasmid templates. Anal Biochem 152:232–238 Google Scholar
Henikoff S (1987) Unidirectional digestion with exonuclease III in DNA sequence analysis. Methods Enzymol 155:156–165 Google Scholar
Himeno H, Masaki H, Kawai T, Ohta T, Kumagai I, Miura I, Watanabe K (1987) Unusual genetic codes and novel gene structure for tRNAAGY Ser in starfish mtDNA. Gene 56:219–230 Google Scholar
Hoffman RJ, Boore JL, Brown WM (1992) A novel mitochondrial genome organization for the blue mussel,Mytilus edulis. Genetics 131:397–412 Google Scholar
Jacobs H, Elliot D, Math V, Farguharson A (1988a) Nucleotide sequence and gene organization of sea urchin mtDNA. J Mol Biol 201:185–217 Google Scholar
Jacobs H, Balfe P, Cohen B, Farquharson A, Comito L (1988b) Phylogenetic implications of genome rearrangement and sequence evolution in echinoderm mitochondrial DNA. In: Paul CRC, Smith AB (eds) Echinoderm phylogeny and evolutionary biology. Clarendon Press, Oxford, pp 121–137 Google Scholar
Jacobs H, Asakawa S, Araki T, Mikura K, Smith MJ, Watanabe K (1989) Conserved tRNA gene cluster in starfish mtDNA. Cuff Genet 15:193–206 Google Scholar
Lansman RA, Shade R, Shapira J, Avise J (1981) The use of restriction endonucleases to measure mtDNA sequence relatedness in natural populations. J Mol Evol 17:214–226 Google Scholar
Maggenti AR (1983) Nematode higher classification as influenced by species and family concepts. In: Stone AR, Platt HM, Kalil LF, (eds) Concepts in nematode systematics. The Systematics Association Special vol. 22. Academic Press, NY Google Scholar
Messing J, Vieira J (1982) A new pair of M13 vectors for selecting either strand of double-digest restriction fragments. Gene 19:269–276 Google Scholar
Moritz C, Brown WM (1987) Tandem duplications in animal mtDNAs: variation in incidence and gene content among lizards. Proc Natl Acad Sci USA 84:7183–7187 Google Scholar
Okimoto R, Chamberlin H, Macfarlane J, Wolstenholme D (1991) Repeated sequence sets in mitochondrial DNA molecules of root-knot nematodes (Meloidogyne): nucleotide sequences, genome location and potential for host-race identification. Nucleic Acids Res 19:1619–1626 Google Scholar
Okimoto R, Macfarlane J, Clary D, Wolstenholme D (1992) The mitochondrial genomes of two nematodes,Caenorhabditis elegans and_Ascaris suum_. Genetics 130:471–498 Google Scholar
Pääbo S, Thomas WK, Whitfield KM, Kumazawa Y, Wilson AC (1991) Rearrangements of mitochondrial transfer RNA genes in marsupials. J Mol Evol 33:426–430 Google Scholar
Pearson WR, Lipman DJ (1988) Improved tools for biological sequence analysis. Proc Natl Acad Sci USA 85:2444–2448 Google Scholar
Rand DM, Harrison RG (1989) Molecular population genetics of mtDNA size variation in crickets. Genetics 121:551–569 Google Scholar
Roe B, Ma D-P, Wilson R, Wong J (1985) The complete nucleotide sequence of the_Xenopus laevis_ mitochondrial genome. J Biol Chem 260:9759–9774 Google Scholar
Sanger F, Nicklen S, Coulson AR (1977) DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci USA 74:5463–5467 Google Scholar
Smiley S (1988) The phylogenetic relationships of holothurians: a cladistic analysis of the extant echinoderm classes. In: Paul CRC, Smith AB (eds) Echinoderm phylogeny and evolutionary biology. Clarendon Press, Oxford, pp 69–84 Google Scholar
Smith AB (1988a) Fossil evidence for the relationships of the extant echinodem classes and their times of divergence. In: Paul CRC, Smith AB (eds) Echinodem phylogeny and evolutionary biology. Clarendon Press, Oxford, pp 85–97 Google Scholar
Smith AB (1988b) Phylogenetic relationships, divergence times, and rates of molecular evolution for camarodont sea urchins. Mol Biol Evol 5:345–346 Google Scholar
Smith, AB (1992) Echinodern phylogeny: morphology and molecules approach accord. TREE 7:224–229 Google Scholar
Smith MJ, Banfield DK, Doteval K, Gorski S, Kowbel D (1989) Gene arrangement in sea star mtDNA demonstrates a major inversion event during echinoderm evolution. Gene 76:181–185 Google Scholar
Smith MJ, Banfield DK, Doteval K, Gorski S, Kowbel DJ (1990) Nucleotide sequence of nine protein-coding genes and 22 tRNAs in the mtDNA of the sea star_Pisaster ochraceus_. J Mol Evol 31:195–204 Google Scholar
Strathmann R (1988) Larvae, phylogeny, and von Baer's law. In: Paul CRC, Smith AB (eds) Echinodem phylogeny and evolutionary biology. Clarendon Press, Oxford, pp 53–68 Google Scholar
Zuckerkandl E (1976) Programs of gene action and progressive evolution. In: Goodman M, Tashian RE (eds) Molecular anthropology. Plenum, New York, pp 387–447 Google Scholar