Sequence analysis of the mitochondrial genome of Sarcophyton glaucum: Conserved gene order among octocorals

Journal of Molecular Evolution

Volumn 47, Issue 6, 1998, Pages 697-708

  Beaton, Margaret J ^a   Roger, Andrew J ^b   Cavalier Smith, Thomas ^a  

^a UNIVERSITY OF BRITISH COLUMBIA   (Canada)

^b MARINE BIOLOGICAL LABORATORY   (United States)

Author keywords

Cnidaria; Gene order; Genetic code; Mitochondrial DNA; Nucleotide sequence; Sarcophyton glaucum

Indexed keywords

DNA; MITOCHONDRIAL DNA; RIBOSOME RNA; TRANSFER RNA;

AMINO ACID SEQUENCE; ARTICLE; CODON; COELENTERATE; GENE MAPPING; GENE ORDER; GENETIC CODE; GENOME; METAZOON; MITOCHONDRION; MOLECULAR EVOLUTION; NONHUMAN; NUCLEOTIDE SEQUENCE;

AMINO ACID SEQUENCE; ANIMALS; BASE COMPOSITION; BASE SEQUENCE; CHROMOSOME MAPPING; CNIDARIA; CODON, INITIATOR; CODON, TERMINATOR; CONSERVED SEQUENCE; DNA, MITOCHONDRIAL; EVOLUTION, MOLECULAR; GENOME; MOLECULAR SEQUENCE DATA; PROTEINS; RNA, RIBOSOMAL; SEQUENCE HOMOLOGY, NUCLEIC ACID; SPECIES SPECIFICITY;

ANIMALIA; ANTHOZOA; CNIDARIA; COELENTERATA; INSECTA; INVERTEBRATA; METAZOA; METRIDIUM SENILE; RENILLA; SARCOPHYTON GLAUCUM; VERTEBRATA;

EID: 0032417005     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/PL00006429     Document Type: Article

References (39)

1. Beagley CT, Macfarlane JL, Pont-Kingdon GA, Okimoto R, Okada NA, Wolstenholme DR (1995) Mitochondrial genomes of Anthozoa (Cnidaria). In: Palmieri F, et al. (eds) Progress in Cell Research, Vol 5, Elsevier, Amsterdam, pp 149-153
2. Beagley CT, Okada NA, Wolstenholme DR (1996) Two mitochondrial group I introns in a metazoan, the sea anemone Metridium senile: One intron contains genes for subunits 1 and 3 of NADH dehydrogenase. Proc Natl Acad Sci USA 93:5619-5623
3. Boore JL, Brown WM (1994) Complete DNA sequence of the mitochondrial genome of the black chiton. Katharina tunicata. Genetics 138:423-443
4. Boore JL, Brown WM (1995) Complete sequence of the mitochondrial DNA of the annelid worm Lumbricus lerrestris. Genetics 141:305-319
5. Boore JL, Collins TM, Stanton D, Daehler LL, Brown WM (1995) Deducing the pattern of arthropod phylogeny from mitochondrial DNA rearrangements. Nature 376:163-165
6. Boyce TM, Zwick ME, Aquadro CF (1989) Mitochondrial DNA in the bark weevils: size, structure and heteroplasmy. Genetics 123:825-836
7. Bridge D, Cunningham CW, Schierwater B, DeSalle R (1992) Class-level relationships in the phylum Cnidaria: evidence from mitochondrial genome structure. Proc Natl Acad Sci USA 89:8750-8753
8. Bridge D, Cunningham CW, Schierwater B, DeSalle R, Buss LW (1995) Class-level relationships in the phylum Cnidaria: molecular and morphological evidence. Mol Biol Evol 12:679-689
9. Burger G, Plante I, Lonergan KM, Gray MW (1995) The mitochondrial DNA of the amoeboid protozoon, Acanthamoeba castellanii: Complete sequence, gene content and genome organization. J Mol Biol 245:522-537
10. Cavalier-Smith T (1998) A revised six-kingdom system of life. Biol Rev 73 (in press)
11. Clary DO, Wolstenholme DR (1985) The mitochondrial DNA molecule of Drosophila yakuba: Nucleotide sequence, gene organization, and genetic code. J Mol Evol 22:252-271
12. De Giorgi C, Martiradonna A, Lanave C, Saccone C (1995) The mitochondrial genome in sea urchin. In: Palmieri F, et al. (eds) Progress in Cell Research, Vol 5, Elsevier, Amsterdam, pp 155-159
13. De Giorgi C, Martiradonna A, Lanave C, Saccone C (1996) Complete sequence of the mitochondrial DNA in the sea urchin Arbacia lixula: Conserved features of the echinoid mitochondrial genome. Mol Phylogenet Evol 5:323-332
14. 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
15. Flook PK, Rowell CHF, Gellissen G (1995) The sequence, organization, and evolution of the Locusta migratoria mitochondrial genome. J Mol Evol 41:928-941
16. France SC, Rosel PE, Agenbroad JE, Mullineaux LS, Kocher TD (1996) DNA sequence variation of mitochondrial large-subunit rRNA provides support for a two-subclass organization of the Anthozoa (Cnidaria). Mol Mar Biol Biotech 5:15-28
17. ser AGN that contains a dihydrouridine arm replacement loop, and of serine-specifying AGA and AGG codons. J Mol Evol 28:374-387
18. Hatzoglou E, Rodakis GC, Lecanidou R (1995) Complete sequence and gene organization of the mitochondrial genome of the land snail Albinaria coerulea. Genetics 140:1353-1366
19. Hoffmann RJ, Boore JL, Brown WM (1992) A novel mitochondrial genome organization for the blue mussel Mytils edulis. Genetics 131:397-412
20. Hori H, Satow Y (1991) Dead-end evolution of the Cnidaria as deduced from 5S ribosomal RNA sequences. In: Williams RB, Cornelius PFS, Hughes RG, Robson EA (eds) Coelenterate Biology: Recent Research on Cnidaria and Ctenophora, Kluwer Academic, Dordrecht, pp 505-508
21. Kyte J, Doolittle RF (1982) A simple method for displaying the hydropathic character of a protein. J Mol Biol 157:105-132
22. Okimoto R, Chamberlin HM, Macfarlane J, Wolstenholme DR (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
23. Okimoto R, Macfarlane JL, Wolstenholme DR (1990) Evidence for the frequent use of TTG as the translation initiation codon of mitochondrial protein genes in the nematodes, Ascaria suum and Caenorhabditis elegans. Nucleic Acids Res 18:6113-6118
24. Okimoto R, Macfarlane JL, Clary DO, Wolstenholme DR (1992) The mitochondrial genomes of two nematodes. Caenorhabditis elegans and Ascaris suum. Genetics 130:471-498
25. f-MET and small-subunit ribosomal RNA. and standard genetic code specificities for AGR and ATA codons. J Mol Evol 39:387-399
26. Pont-Kingdon GA, Okada NA, Macfarlane JL, Beagley CT, Wolstenholme DR, Cavalier-Smith T, Clark-Walker GD (1995) A coral mitochondrial MutS gene. Nature 375:109-111
27. Pont-Kingdon GA, Okada NA, Macfarlane JL, Beagley CT, Watkins-Sims CD, Cavalier-Smith T, Clark-Walker GD, Wolstenholme DR (1998) Mitochondrial DNA of the coral Sarcophyton glaucum contains a gene for a homologue of bacterial MutS: A possible case of gene transfer from the nucleus to the mitochondrion. J Mol Evol 46:419-431
28. Pritchard AE, Seilhamer JJ, Sable CL, Venuti SE, Cummings DJ (1990) Nucleotide sequence of the mitochondrial genome of Paramecium. Nucleic Acids Res 18:173-180
29. Romano SL, Palumbi SR (1996) Evolution of scleractinian corals inferred from molecular systematics. Science 271:640-642
30. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning: A laboratory manual, Ed 2. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY
31. Schuchert P (1993) Phylogenetic analysis of the Cnidaria. Z Zool Syst Evolut-forsch 31:161-173
32. Schultz DW, Yarus M (1996) On malleability in the genetic code. J Mol Evol 42:597-601
33. Smith MJ, Arndt A, Gorski S, Fajber E (1993) The phylogeny of echinoderm classes based on mitochondrial gene arrangements. J Mol Evol 36:545-554
34. Stanton DJ, Crease TJ, Hebert PDN (1991) Cloning and characterization of Daphnia mitochondrial DNA. J Mol Evol 33:152-155
35. Terrett JA, Miles S, Thomas RH (1996) Complete DNA sequence of the mitochondrial genome of Cepaea nemoralis (Gastropoda: Pulmonata). J Mol Evol 42:160-168
36. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTALW: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673-4680
37. Wolstenholme DR (1992) Animal mitochondrial DNA: structure and evolution. Int Rev Cytol 141:173-216
38. Worley KC, Wiese BA, Smith RF (1995) BEAUTY: An enhanced BLAST-based search tool that integrates multiple biological information resources into sequence similarity search results. Genome Res 5:173-184
39. Yamazaki N, Ueshima R, Terrett JA, Yokobori S, Kaifu M, Segawa R, Kobayashi T, Numachi K, Ueda T, Nishikawa K, Watanahe K, Thomas RH (1997) Evolution of pulmonate gastropod mitochondrial genomes: comparisons of gene organisations of Euhadra. Cepaes and Albinaria and implications of unusual tRNA secondary structures. Genetics 145:749-758