Complete sequence of the mitochondrial DNA of the primitive opisthobranch gastropod Pupa strigosa: Systematic implication of the genome organization

Molecular Biology and Evolution

Volumn 17, Issue 2, 2000, Pages 266-277

  Kurabayashi, Atsushi ^a   Ueshima, Rei ^b  

^a UNIVERSITY OF TSUKUBA   (Japan)

^b UNIVERSITY OF TOKYO   (Japan)

Author keywords

Gastropoda; Gene arrangement; Mitochondrial genome; Opisthobranch; Phylogeny; tRNA

Indexed keywords

MITOCHONDRIAL DNA; PROTEIN; RIBOSOME RNA; TRANSFER RNA;

ARTICLE; DNA SEQUENCE; GASTROPOD; GENE REARRANGEMENT; GENOME; MITOCHONDRION; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; POLYMERASE CHAIN REACTION; RNA EDITING; RNA STRUCTURE;

GASTROPODA; LITTORINA SAXATILIS; METAZOA; MOLLUSCA; PUPA STRIGOSA; STYLOMMATOPHORA;

EID: 0033963849     PISSN: 07374038     EISSN: None     Source Type: Journal    
DOI: 10.1093/oxfordjournals.molbev.a026306     Document Type: Article

References (57)

1. ANDERSON, S., A. T. BANKIER, B. G. BARRELL, M. H. L. DE BRUIJN, A. R. COULSON, I. C. EPERON, F. SANGER, and I. G. YOUNG. 1981. Sequence and organization of the human mitochondrial genome. Nature 290:457-465.
2. ASAKAWA, S., Y. KUMAZAWA, T. ARAKI, H. HIMENO, K. MIURA, and K. WATANABE. 1991. Strand-specific nucleotide bias in echinoderm and vertebrate mitochondrial genomes. J. Mol. Evol. 32:511-520.
3. BIBB, M. H., R. A. VAN ETTEN, C. T. WRIGHT, W. M. WALBERG, and D. A. CLAYTON. 1981. Sequence and genome organization of mouse mitochondrial DNA. Cell 26:167-180.
4. BLACK, W. C. IV, and R. L. ROEHRDANZ. 1998. Mitochondrial gene order is not conserved in Arthropoda: prostriate and metastriate tick mitochondrial genomes. Mol. Biol. Evol. 15:1772-1785.
5. BOORE, J. L. 1999. Animal mitochondrial genomes. Nucleic Acids Res. 27:1767-1780.
6. BOORE, J. L., and W. M. BROWN. 1994a. Complete DNA sequence of the mitochondrial genome of the black chiton, Katharina tunicata. Genetics 138:423-443.
7. _. 1994b. Mitochondrial genomes and the phylogeny of molluscs. Nautilus 108(Suppl. 2):61-78.
8. _. 1995. Complete sequence of the mitochondrial DNA of the annelid worm Lumbricus terrestris. Genetics 141: 305-319.
9. _. 1998. Big trees from little genomes: mitochondrial gene order as a phylogenetic tool. Curr. Opin. Genet. Dev. 8:668-674.
10. BOORE, J. L., T. M. COLLINS, D. STANTON, L. L. DAEHLER, and W. M. BROWN. 1995. Deducing the pattern of arthropod phylogeny from mitochondrial DNA rearrangements. Nature 376:163-165.
11. BÖRNER, G. V., S. YOKOBORI, M. MÖRL, M. DÖRNER, and S. PÄÄBO. 1997. RNA editing in rnetazoan mitochondria: staying fit without sex. FEBS Lett. 409:320-324.
12. BOYCE, T. H., M. E. ZWICK, and C. F. AQUADRO. 1989. Mitochondrial DNA in the bark weevils: Size, structure and heteroplasmy. Genetics 123:825-836.
13. BRUSCA, R. C., and G. J. BRUSCA. 1990. Invertebrates. Sinauer, Sunderland, Mass.
14. CAMPBELL, N. J. H., and S. C. BARKER. 1999. The novel mitochondrial gene arrangement of the cattle tick, Boophilus microplus: fivefold tandem repetition of a coding region. Mol. Biol. Evol. 16:732-740.
15. CHENG, S., S.-Y. CHANG, P. GRAVITT, and R. RESPESS. 1994. Long PCR. Nature 369:684-685.
16. CLARY, D. O., and D. R. WOLSTENHOLME. 1985. The mitochondrial DNA molecule of Drosophila yakuba: nucleotide sequence, gene organization and genetic code. J. Mol. Evol. 22:252-271.
17. CROZIER, R. H., and Y. C. CROZIER. 1993. The mitochondrial genome of honeybee Apis mellifera: Complete sequence and genome organization. Genetics 133:97-117.
18. DESJARDINS, P., and R. MORAIS. 1990. Sequence and gene organization of chicken mitochondrial genome: a novel gene order in higher vertebrates. J. Mol. Biol. 212:599-634.
19. DOWTON, M. 1999. Relationships among the cyclostome braconid (Hymenoptera: Braconidae) subfamilies inferred from a mitochondrial tRNA gene rearrangement. Mol. Phylogenet. Evol. 11:283-287.
20. FELSENSTEIN, J. 1996. PHYLIP: phylogeny inference package. Version 3.5c. Distributed by the author, Department of Genetics, University of Washington, Seattle.
21. HATZOGLOU, H., C. GEORGE, and R. LECANIDOU. 1995. Complete sequence and gene organization of the mitochondrial genome of the land snail Albinaria coerulea. Genetics 140: 1353-1366.
22. HOFFMANN, R. J., J. L. BOORE, and W. M. BROWN. 1992. A novel mitochondrial genome organization for the blue mussel, Mytilus edulis. Genetics 131:397-412.
23. HYMAN, L. H. 1967. The invertebrates, Vol. 6. Mollusca. 1. McGraw-Hill, New York.
24. JACOBS, H. T., D. J. ELLIOTT, V. B. MATH, and A. FARQUHARSON. 1988. Nucleotide sequence and gene organization of sea urchin mitochondrial DNA. J. Mol. Biol. 202:185-217.
25. KUMAZAWA, Y., and M. NISHIDA. 1995. Variations in mitochondrial tRNA gene organization of reptiles as phylogenetic markers. Mol. Biol. Evol. 12:759-772.
26. L'ABBE, D., J. F. DUHAIME, B. F. LANG, and R. MORAIS. 1991. The transcription of DNA in chicken mitochondria initiates from one major bidirectional promoter. J. Biol. Chem. 266: 10844-10850.
27. LEE, W.-J., and T. D. KOCHER. 1995. Complete sequence of a sea lamprey (Petromyzon marinus) mitochondrial genome: early establishment of the vertebrate genome organization. Genetics 139:873-887.
28. MACEY, R. J., A. LARSON, N. B. ANANJEVA, and T. J. PAPENFUSS. 1997. Replication slippage may cause parallel evolution in the secondary structures of mitochondrial transfer RNAs. Mol. Biol. Evol. 14:30-39.
29. MINDELL, D. P., M. D. SORENSON, and D. E. DIMCHEFF. 1998. Multiple independent origins of mitochondrial gene order in birds. Proc. Natl. Acad. Sci. USA 95:10693-10697.
30. OJALA, D., C. MERKEL, R. GELFAND, and G. ATTARDI. 1980. The tRNA genes punctuate the reading of genetic information in human mitochondrial DNA. Cell 22:393-403.
31. OJALA, D., J. MONTOYA, and G. ATTARDI. 1981. tRNA punctuation model of RNA processing in human mitochondria. Nature 290:470-474.
32. OKIMOTO, R., J. L. MACFARLANE, D. O. CLARY, and D. R. WOLSTENHOLME. 1992. The mitochondrial genomes of two nematodes, Caenorhabditis elegans and Ascaris suum. Genetics 130:471-498.
33. PÄÄBO, S., W. K. THOMAS, K. M. WHITFIELD, Y. KUMAZAWA, and A. C. WILSON. 1991. Rearrangements of mitochondrial transfer RNA genes in marsupials. J. Mol. Evol. 33:426-430.
34. PONDER, W. F. 1998. Classification. P. 607 in P. L. BEESLEY, G. J. B. ROSS, and A. WELLS, eds. Mollusca: the southern synthesis. Fauna of Australia. Vol. 5, Part B. CSIRO Publishing, Melbourne, Australia.
35. PONDER, W. F., and D. R. LINDBERG. 1996. Gastropodan phylogeny - challenges for the 90s. Pp. 135-155 in T. D. TAYLOR, ed. Origin and evolutionary radiation of the Mollusca. Oxford Scientific, Oxford, England.
36. _. 1997. Towards a phylogeny of gastropod molluscs: an analysis using morphological characters. Zool. J. Linn. Soc. 119:83-265.
37. ROE, B. A., D.-P. MA, R. K. WILSON, and J. F.-H. WONG. 1985. The complete nucleotide sequence of the Xenopus laevis mitochondrial genome J. Biol. Chem. 260:9759-9774.
38. SALVINI-PLAWEN, L. V. 1980. A reconsideration of systematics in the Mollusca (phylogeny and higher classification). Malacologia 19:249-278.
39. SALVINI-PLAWEN, L. V., and G. STEINER. 1996. Synapomorphies and plesiomorphies in higher classification of Mollusca. Pp. 29-53 in T. D. TAYLOR, ed. Origin and evolutionary radiation of the Mollusca. Oxford Scientific, Oxford, England.
40. SAMBROOK, J., E. F. FRITSCH, and T. MANIATIS. 1989. Molecular cloning: a laboratory manual. 2nd edition. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
41. SANGER, F., S. NICKLEN, and A. R. COULSON. 1977. DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci. USA 74:5463-5467.
42. SHAHJAHAN, R. M. 1995. Lower incubation temperature increases yield of insect genomic DNA isolated by the CTAB method. Biotechniques 19:332-334.
43. SMITH, M. J., A. ARNDT, S. GORSKI, and E. FAJBER. 1993. The phylogeny of echinoderm classes based on mitochondrial gene arrangements. J. Mol. Evol. 36:545-554.
44. STATON, J. L., L. L. DAEHLER, and W. M. BROWN. 1997. Mitochondrial gene arrangement of the horseshoe crab Limulus polyphemus: conservation of major features among arthropod classes. Mol. Biol. Evol. 14:867-874.
45. SWOFFORD, D. L. 1996. PAUP. National Museum of Natural History, Smithsonian Institution, Washington, D.C.
46. TERRETT, J. A., S. MILES, and R. H. THOMAS. 1996. Complete DNA sequence of Cepaea nemoralis (Gastropoda: Stylommatophora). J. Mol. Evol. 42:160-168.
47. THOMPSON, J. D., D. G. HIGGINS, and T. J. GIBSON. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.
48. TOMITA, K., T. UEDA, and K. WATANABE. 1996. RNA editing in the acceptor stem of squid mitochondrial tRNA(Tyr). Nucleic Acids Res. 24:4987-4991.
49. TZENG, C.-S., C.-F. HUI, S.-C. SHEN, and P. C. HUANG. 1992. The complete nucleotide sequence of the Crossostoma lacustre mitochondrial genome: conservation and variations among vertebrates. Nucleic Acids Res. 20:4853-4858.
50. VALVERDE, J. R., B. BATUECAS, C. MORATILLA, and R. GARESSE. 1994. The complete mitochondrial DNA sequence of the crustacean Anemia franciscana. J. Mol. Evol. 39:400-408.
51. VAUGHT, K. C. 1989. A classification of the living Mollusca. American Malacologists, Melbourne, Fla.
52. WILDING C. S., P. J. MILL, and J. GRAHAME. 1999. Partial sequence of the mitochondrial genome of Littorina saxatilis: relevance to gastropod phylogenetics. J. Mol. Evol. 48: 348-359.
53. WINNEPENNINCKX, B., G. STEINER, T. BACKELJAU, and R. D. WACHTER. 1998. Details of gastropod phylogeny inferred from 18s rRNA sequences. Mol. Phylogenet. Evol. 9:55-63.
54. WOLSTENHOLME, D. R. 1992. Animal mitochondria DNA: structure and evolution. Int. Rev. Cytol. 141:173-216.
55. YAMAZAKI, N., R. UESHIMA, J. A. TERRETT et al. (12 co-authors). 1997. Evolution of pulmonate gastropod mitochondrial genomes: comparisons of gene organizations of Euhadra, Cepaea and Albinaria and implications of unusual tRNA secondary structures. Genetics 145:749-758.
56. YOKOBORI, S., and S. PÄÄBO. 1995. Transfer RNA editing in land snail mitochondria. Proc. Natl. Acad. Sci. USA 92: 10432-10435.
57. _. 1997. Polyadenylation creates the discriminator nucleotide of chicken mitochondrial tRNA Tyr. J. Mol. Biol. 265: 95-99.