Novel repeat elements in the nuclear ribosomal RNA operon of the flat oysters Ostrea edulis c. Linnaeus, 1758 and O. angasi Sowerby, 1871

Journal of Shellfish Research

Volumn 21, Issue 2, 2002, Pages 697-705

  Kenchington, E ^a   Bird, C J ^b   Osborne, J ^b   Reith, M ^b  

^a BEDFORD INSTITUTE OF OCEANOGRAPHY   (Canada)

^b NATIONAL RESEARCH COUNCIL CANADA   (Canada)

Author keywords

ITS; Ostrea; rDNA sequence

Indexed keywords

RNA;

CRASSOSTREA; CRASSOSTREA GIGAS; CRASSOSTREA NIPPONA; INSERTION SEQUENCES; INVERTEBRATA; OSTREA; OSTREA ANGASI; OSTREA EDULIS; OSTREIDAE; SACCOSTREA; SACCOSTREA COMMERCIALIS; SACCOSTREA CUCCULLATA; TRANSPOSONS;

EID: 0036968139     PISSN: 07308000     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (47)

1. Altschul, S. F., T. L. Madden, A. A. Schäffer, J. Zhang, Z. Zhang, W. Miller & J. J. Lipman. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
2. Anderson, T. J. & R. J. Adlard. 1994. Nucleotide sequence of a rDNA internal transcribed spacer supports synonymy of Saccostrea commercialis and S. glomerata. J. Moll. Stud. 60:196-197.
3. Appels, R. & R. L. Honeycutt. 1986. rDNA: evolution over a billion years. In: S. K. Dutta, editor. DNA systematics, vol. II. Plants. Boca Raton, FL: CRC Press, pp. 81-135.
4. Banks, M. A., J. Hedgecock & C. Waters. 1993. Discrimination between closely related Pacific oyster species (Crassostrea) via mitochondrial DNA sequences coding for large subunit rRNA. Mol. Mar. Biol. Biotechnol. 2:129-136.
5. Bird, C. J., E. L. Rice, C. A. Murphy & M. A. Ragan. 1992. Phylogenetic relationships in the Gracilariales (Rhodophyta) as determined by 18S rDNA sequences. Phycologia 31:510-522.
6. Boudry, P., S. Heurtebise, B. Collet, F. Cornette & A. Gerard. 1998. Differentiation between populations of the Portuguese oyster, Crassostrea angulata (Lamark) and the Pacific oyster, Crassostrea gigas. J. Exp. Mar. Biol. Ecol. 226:279-291.
7. Brock, V. 1990. Intergeneric distances between Ostrea, Crassostrea, and Saccostrea, studied by means of crossed immuno-electrophoresis. Mar. Ecol. Prog. Ser. 68:59-63.
8. Buroker, N. E., W. K. Hershberger & K. K. Chew. 1979a. Population genetics of the Family Ostreidae. I. Intraspecific studies of the genera Crassostrea and Saccostrea. Mar. Biol. 54:157-169.
9. Buroker, N. E., W. K. Hershberger & K. K. Chew. 1979b. Population genetics of the Family Ostreidae. II. Interspecific studies of the genera Crassostrea and Saccostrea. Mar. Biol. 54:171-184.
10. Busby, S. & R. H. Reeder. 1983. Spacer sequences regulate transcription of ribosomal gene plasmids injected into Xenopus embryos. Cell 34:989-996.
11. Campbell, J. C., K. J. Hoekstra & J. G. Carter. 1998. 18S ribosomal DNA and evolutionary relationships within the Bivalvia. In: P. A. Johnson & J. W. Haggart, editors. Bivalves: An eon of evolution. Calgary: University of Calgary Press, pp. 75-85.
12. Carriker, M. R. & P. M. Gaffney. 1996. A catalogue of selected species of living oysters (Ostreacea) of the World. In: V. S. Kennedy, R. I. E. Newell & A. F. Eble, editors. The Eastern oyster Crassostrea virginica. University of Maryland System, College Park, MD: Maryland Sea Grant College, pp. 1-18.
13. Field, K. G., G. J. Olsen, J. J. Lane, S. J. Giovannoni, M. T. Ghiselin, E. C. Raff, N. R. Pace & R. A. Raff. 1988. Molecular phylogeny of the animal kingdom. Science 239:748-753.
14. Frischer, M. E., J. Williams & E. Kenchington. 1998. A molecular phylogeny of some major groups of Pectinidae inferred from 18S rRNA gene sequences. In: P. A. Johnson & J. W. Haggart, editors. Bivalves: An eon of evolution. Calgary: University of Calgary Press, pp. 213-221.
15. Ghiselin, M. T. 1988. The origin of molluscs in the light of molecular evidence. In: P. H. Harvey & L. Partridge, editors. Oxford Surveys in Evolutionary Biology, vol. 5, Oxford: Oxford University Press, pp. 66-95.
16. Grimaldi, G. & P. P. Di Nocera. 1988. Multiple repeated units in Drosophila melanogaster ribosomal DNA spacer stimulate rRNA precursor transcription. Proc. Natl. Acad. Sci. USA 85:5502-5506.
17. Hadjiolov, A. A. 1985. The nucleolus and ribosome biogenesis. In: A. M. Burman, L. Goldstein, K. R. Portrer & P. Sitte, editors. Cell Biology Monographs, vol. 12. New York: Springer-Verlag, pp. 1-263.
18. Harry, H. W. 1985. Synopsis of the supraspecific classification of living oysters (Bivalvia: Gryphaeidae and Ostreidae). Veliger 28:121-158.
19. Hillis, J. M. & S. K. Davis. 1988. Ribosomal DNA: intraspecific polymorphism, concerted evolution, and phylogeny reconstruction. Syst. Zool. 37:63-66.
20. Hillis, J. M. & M. T. Dixon. 1991. Ribosomal DNA: Molecular evolution and phylogenetic inference. Quart. Rev. Biol. 66:411-453.
21. Jeffreys, A. J., K. Tamaki, A. MacLeod, J. Monckton, J. Neil & J. A. L. Armour. 1994. Complex gene conversion events in germline mutation at human minisatellites. Nat. Genet. 6:136-145.
22. Jozefowicz, C. J. & J. Ó Foighil. 1998. Phylogenetic analysis of southern hemisphere fiat oysters based on partial mitochondrial 16S rDNA gene sequences. Mol. Phylogenet. Evol. 10:426-435.
23. Kenchington, E. L. R., J. L. Roddick, R. K. Singh & C. J. Bird. 1994. Analysis of small sub-unit rRNA gene sequences from six families of molluscs. J. Mar. Biotechol. 1:215-217.
24. Kenchington, E. L. R., J. L. Landry & C. J. Bird. 1995. Comparison of taxa of the mussel Mytilus (Bivalvia) by analysis of the nuclear small-subunit rRNA gene sequence. Canadian Journal of Fisheries and Aquatic Sciences 52:2613-2620.
25. Kohorn, B. J. & P. M. M. Rae. 1982. Nontranscribed spacer sequences promote in vitro transcription of Drosophila ribosomal DNA. Nucleic Acids Res. 10:6879-6886.
26. Lalev, A. I., P. J. Abeyrathne & R. N. Nazar. 2000. Ribosomal RNA maturation in Schizosaccharomyces pombe is dependent on a large ribonucleoprotein complex of the internal transcribed spacer 1. J. Mol. Biol 302:65-77.
27. Levinson, J. H. & G. A. Gutman. 1987. Slipped-strand mispairing: a major mechanism for DNA sequence evolution. Mol. Biol. Evol. 4:203-221.
28. Li, X. X. & J. N. Havenhand. 1997. Karyotype, nucleolus organiser regions and constitutive heterochromatin in Ostrea angasi (Molluscae: Bivalvia): evidence of taxonomic relationship within the Ostreidae. Mar. Biol. 127:443-448.
29. Littlewood, J. T. J. 1994. Molecular phylogenetics of cupped oysters based on partial 28S rRNA gene sequences. Mol. Phylogenet. Evol. 3:221-229.
30. Long, E. O. & I. B. Dawid. 1980. Repeated genes in eukaryotes. Ann. Rev. Biochem. 49:727-764.
31. Maniatis, T., E. F. Fritsch & J. Sambrook. 1982. Molecular cloning. A laboratory manual. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory, 545 pp.
32. Messler, W. 1996. The birth of microsatellites. Nature 381:483.
33. Moss, T. 1983. A transcriptional function for the repetitive ribosomal spacer in Xenopus laevis. Nature 302:223-228.
34. Nakamura, H. K. 1989. On the phylogenetic origin of molluscs, with respect to molecular phylogenies based on ribosomal RNA sequences. Venus. Jap. J. Malacol 48:198-207.
35. Ó Foighil, D., B. A. Marshall, T. J. Hilbish & M. A. Pino. 1999. Transpacific range extension by rafting is inferred for the flat oyster Ostrea chilensis. Biol. Bull. 196:122-126.
36. Ó Foighil, J. & J. J. Taylor. 2000. Evolution of parental care and ovulation behavior in oysters. Mol. Phylogenet. Evol. 15:301-313.
37. Patwary, M. U., C. W. Sensen, R. M. MacKay & J. P. van der Meer. 1998. Nucleotide sequences of small-sub-unit and internal transcribed spacer regions of nuclear rRNA genes support the autonomy of some genera of the Gelidiales (Rhodophyta). J. Phycol. 34:299-305.
38. Rice, E. L. & C. J. Bird. 1990. Relationships among geographically distinct populations of Gracilaria verrucosa (Gracilariales, Rhodophyta) and related species. Phycologia 29:501-510.
39. Rice, E. L., J. L. Roddick & R. K. Singh. 1993. A comparison of molluscan (Bivalvia) phylogenies based on palaeontological and molecular data. Mol. Mar. Biol. Biotechnol. 2:137-146.
40. Sekar, V. 1987. A rapid screening procedure for the identification of recombinant bacterial clones. BioTechniques 5:11-13.
41. Sogin, M. L., J. H. Gunderson, H. J. Elwood, R. A. Alonso & J. A. Peattie. 1986. Phylogenetic meaning of the kingdom concept: an unusual ribosomal RNA from Giardia lamblia. Science 243:75-77.
42. Steiner, G. & M. Müller. 1996. What can 18S rDNA do for bivalve phylogeny? J. Mol. Evol. 43:58-70.
43. Taylor, J. S. & F. Breden. 2000. Slipped-strand mispairing at noncontiguous repeats in Poecilia reticulata: a model for minisatellite birth. Genetics 155:1313-1320.
44. Thiriot-Quievreux, C. & A. Insua. 1992. Nucleolar organiser region variation in the chromosomes of three oyster species. J. Exp. Mar. Biol. Ecol. 157:33-40.
45. Thomson, J. 1954. The genera of oysters and the Australian species. Aust. J. Mar. Freshwater Res 5:132-168.
46. Thompson, J. D., J. G. Higgins & T. J. Gibson. 1994. CLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequencing weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.
47. van Herwerden, L., J. Blair & T. Agatsuma. 1999. Intra- and interindividual variation in ITS1 of Paragonimus westermani (Trematoda: Digenea) and related species: implications for phylogenetic studies. Mol. Phylogenet. Evol. 12:67-73.