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Chromosomal organization of simple sequence repeats in the Pacific oyster (Crassostrea gigas): (GGAT)4, (GT)7 and (TA)10 chromosome patterns

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Abstract

Chromosome identification is essential in oyster genomic research. Fluorescence in situ hybridization (FISH) offers new opportunities for the identification of oyster chromosomes. It has been used to locate satellite DNAs, telomeres or ribosomal DNA sequences. However, regarding chromosome identification, no study has been conducted with simple sequence repeats (SSRs). FISH was used to probe the physical organization of three particular SSRs, (GGAT)4, (GT)7 and (TA)10 onto metaphase chromosomes of the Pacific oyster, Crassostrea gigas. Hybridization signals were observed in all the SSR probes, but the distribution and intensity of signals varied according to the oligonucleotide repeat. The intercalary, centromeric and telomeric bands were observed along the chromosomes, and for each particular repeat every chromosome pair presented a similar pattern, allowing karyotypic analysis with all the SSRs tested. Our study is the first in mollusks to show the application of SSR in situ hybridization for chromosome identification and karyotyping. This technique can be a useful tool for oyster comparative studies and to understand genome organization in different oyster taxa.

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References

  • Adega F., Chaves R., Kofler A., Krausman P. R., Masabanda J., Wienberg J. et al. 2006 High-resolution comparative chromosome painting in the Arizona collared peccary (Pecari tajacu, Tayassuidae): a comparison with the karyotype of pig and sheep. Chromosome Res. 14, 243–251.

    Article  PubMed  CAS  Google Scholar 

  • Bouilly K., Leitão A., Chaves R., Guedes-Pinto H., Boudry P. and Lapègue S. 2005 Endonuclease banding reveals that atrazine-induced aneuploidy resembles spontaneous chromosome loss in Crassostrea gigas. Genome 48, 177–180.

    Article  PubMed  CAS  Google Scholar 

  • Chaves R., Adega F., Santos S., Guedes-Pinto H. and Heslop-Harrison J. S. 2002 In situ hybridization and chromosome banding in mammalian species. Cytogenet. Genome Res. 96, 113–116.

    Article  PubMed  CAS  Google Scholar 

  • Clabby C., Goswami U., Flavin F., Wilkins N. P., Houghton J. A. and Powell R. 1996 Cloning, characterization and chromosomal location of a satellite DNA from the Pacific oyster, Crassostrea gigas. Gene 168, 205–209.

    Article  PubMed  CAS  Google Scholar 

  • Colomba M. S., Vitturi R., Castriota L., Bertoni R. and Libertini A. 2002 FISH mapping of 18S–28S and 5S ribosomal DNA, (GATA)n and (TTAGGG)n telomeric repeats in the periwinkle Melarhaphe neritoides (Prosobranchia, Gastropoda, Caenogastropoda). Heredity 88, 381–384.

    Article  PubMed  CAS  Google Scholar 

  • Cross I., Díaz E., Sánchez I. and Rebordinos L. 2005 Molecular and cytogenetic characterization of Crassostrea angulata chromosomes. Aquaculture 247, 135–144.

    Article  CAS  Google Scholar 

  • Cuadrado A. and Schwarzacher T. 1998 The chromosomal organization of simple sequence repeats in wheat and rye genomes. Chromosoma 107, 587–594.

    Article  PubMed  CAS  Google Scholar 

  • Cuadrado A., Schwarzacher T. and Jouve N. 2000 Identification of different chromatin classes in wheat using in situ hybridization with simple sequence repeat oligonucleotides. Theor. Appl. Genet. 101, 711–717.

    Article  CAS  Google Scholar 

  • Depeiges A., Goubely C., Lenoir A., Cocherel S., Picard G., Raynal M. et al. 1995 Identification of the most represented repeated motifs in Arabidopsis thaliana microsatellite loci. Theor. Appl. Genet. 91, 160–168.

    Article  CAS  Google Scholar 

  • Gallardo-Escárate C., Álvarez-Borrego J., Del Río-Portilla M. A., Cross I., Merlo A. and Rebordinos L. 2005 Fluorescence in situ hybridization of rDNA, telomeric (GATA)n and (TTAGGG)n repeats in the red abalone Haliotis rufescens (Archaeogastropoda: Haliotidae). Hereditas 142, 73–79.

    Article  PubMed  Google Scholar 

  • Guo X. and Allen S. K. Jr 1997 Fluorescence in situ hybridization of vertebrate telomere sequence to chromosome ends of the Pacific oyster, Crassostrea gigas Thunberg. J. Shellfish Res. 16, 87–89.

    Google Scholar 

  • Hubert S. and Hedgecock D. 2004 Linkage maps of microsatellite DNA markers for the Pacific oyster Crassostrea gigas. Genetics 168, 351–362.

    Article  PubMed  CAS  Google Scholar 

  • Insua A. and Thiriot-Quiévreux C. 1993 Karyotype and nucleolar organizer regions in Ostrea puelchana (Bivalvia: Ostreidae). Veliger 36, 215–219.

    Google Scholar 

  • Insua A. and Méndez J. 1999 Physical mapping and activity of ribosomal RNA genes in mussel Mytilus galloprovincialis. Hereditas 128, 189–194.

    Article  Google Scholar 

  • Knapik E. W., Goodman A., Ekker M., Chevrette M., Delgado J., Neuhauss S. et al. 1998 A microsatellite genetic linkage map for zebrafish (Danio rerio). Nat. Genet. 18, 338–343.

    Article  PubMed  CAS  Google Scholar 

  • Ladron de Guevara B., Winkler F. and Palma C. 1994 Karyotype description and the position of the nucleolar organizer region (NOR) in the Chilean oyster Tiostrea chilensis (Philippi) Chanley and Dinamani. In Genetics and Evolution of Aquatic Organisms (ed. A. R. Beaumont), pp. 399–405. Chapman and Hall, London.

    Google Scholar 

  • Lagercrantz U., Ellegren H., Andersson L. 1993 The abundance of various polymorphic microsatellite motifs differs between plants and vertebrates. Nucleic Acids Res. 21, 1111–1115.

    Article  PubMed  CAS  Google Scholar 

  • Leitão A., Thiriot-Quiévreux C., Boudry P. and Malheiro I. 1999 A ‘G’ chromosome banding study of three cupped oyster species: Crassostrea gigas, Crassostrea angulata and Crassostrea virginica (Mollusca: Bivalvia). Genet. Sel. Evol. 31, 519–527.

    Article  Google Scholar 

  • Leitão A., Boudry P. and Thiriot-Quiévreux C. 2001 Evidence of differential chromosome loss in aneuploid karyotypes of the Pacific oyster, Crassostrea gigas. Genome 44, 735–737.

    Article  PubMed  Google Scholar 

  • Leitão A., Chaves R., Santos S., Guedes-Pinto H. and Boudry P. 2004 Restriction enzyme digestion chromosome banding in Crassostrea and Ostrea species: comparative karyological analysis within Ostreidae. Genome 47, 781–788.

    Article  PubMed  Google Scholar 

  • Löwenhaupt K., Rich A. and Pardue M. L. 1989 Nonrandom distribution of long mono-and dinucleotide repeats in Drosophila chromsomes: correlations with dosage compensation, heterochromatin, and recombination. Mol. Cell. Biol. 9, 1173–1182.

    PubMed  Google Scholar 

  • Nanda I., Zischler H., Epplen C., Guttenbach M. and Schmid M. 1991 Chromosomal organization of simple repeated DNA sequences. Electrophoresis 12, 193–203.

    Article  PubMed  CAS  Google Scholar 

  • Rodríguez-Romero F., Laguarda-Figueras A., Uribe-Alcocer M. and Rojas-Lara M. L. 1979 Distribution of ‘G’ bands in the karyotype of Crassostrea virginica. Venus Jpn. J. Malacol. 38, 180–184.

    Google Scholar 

  • Schlötterer C. and Tautz D. 1992 Slippage synthesis of simple sequence DNA. Nucleic Acids Res. 20, 211–215.

    Article  PubMed  Google Scholar 

  • Schmidt T., Boblenz K., Metzlaff M., Kaemmer D., Weising K. and Kahl G. 1993 DNA fingerprinting in sugar beet (Beta vulgaris) — identification of double-haploid breeding lines. Theor. Appl. Genet. 85, 653–657.

    Article  CAS  Google Scholar 

  • Schuler G. D., Boguski M. S., Stewart E. A., Stein L. D., Gyapay G., Rice K. et al. 1996 A gene map of the human genome. Science 274, 540–556.

    Article  PubMed  CAS  Google Scholar 

  • Sumner A. T. 1972 A simple technique for demonstrating centromeric heterochromatin. Exp. Cell Res. 75, 304–306.

    Article  PubMed  CAS  Google Scholar 

  • Tautz D. and Renz M. 1984 Simple sequences are ubiquitous repetitive components of eukaryotic genomes. Nucleic Acids Res. 12, 4127–4138.

    Article  PubMed  CAS  Google Scholar 

  • Tautz D., Trick M. and Dover G. A. 1986 Cryptic simplicity in DNA is a major source of genetic variation. Nature 322, 652–656.

    Article  PubMed  CAS  Google Scholar 

  • Thiriot-Quiévreux C. 1984 Analyse comparée des caryotypes d’Ostreidae (Bivalvia). Cah. Biol. Mar. 25, 407–418.

    Google Scholar 

  • Thiriot-Quiévreux C. and Ayraud N. 1982 Les caryotypes de quelques espèces de bivalves et gastèropodes marins. Mar. Biol. 70, 165–172.

    Article  Google Scholar 

  • Vitturi R., Colomba M. S., Gianguzza P. and Pirrone A. M. 2000 Chromosomal location of ribosomal DNA (rDNA), (GATA)n and (TTAGGG)n telomeric repeats in the neogastropod Fasciolaria lignaria (Mollusca: Prosobranchia). Genetica 108, 253–257.

    Article  PubMed  CAS  Google Scholar 

  • Vitturi R., Colomba M., Castriota L., Beltrano A. M., Lannino A. and Volpe N. 2002 Chromosome analysis using different staining techniques and fluorescent in situ hybridization in Cerithium vulgatum (Gastropoda: Cerithiidae). Hereditas 137, 101–106.

    Article  PubMed  CAS  Google Scholar 

  • Vitturi R., Libertini A., Sineo L., Sparacio I., Lannino A., Gregorini A. et al. 2005 Cytogenetics of the land snails Cantareus aspersus and C. mazzullii (Mollusca: Gastropoda: Pulmonata). Micron 36, 351–357.

    Article  PubMed  CAS  Google Scholar 

  • Wallace R. B., Johnson M. J., Hirose T., Miyake T., Kawashima E. H. and Itakura K. 1981 The use of synthetic oligonucleotides as hybridization probes. II. Hybridization of oligonucleotides of mixed sequence to rabbit β-globin DNA. Nucleic Acids Res. 9, 879–894.

    Article  PubMed  CAS  Google Scholar 

  • Wang Y., Xu Z. and Guo X. 2001 A centromeric satellite sequence in the Pacific oyster (Crassostrea gigas Thunberg) identified by fluorescence in situ hybridization. Mar. Biotechnol. 3, 486–492.

    Article  PubMed  CAS  Google Scholar 

  • Wang Y., Xu Z. and Guo X. 2004 Differences in the rDNA-bearing chromosome divide the Asian-Pacific and Atlantic species of Crassostrea (Bivalvia, Mollusca). Biol. Bull. 206, 46–54.

    Article  PubMed  CAS  Google Scholar 

  • Wang Y., Xu Z., Pierce J. C. and Guo X. 2005 Characterization of eastern oyster (Crassostrea virginica Gmelin) chromosomes by fluorescence in situ hybridization with bacteriophage P1 clones. Mar. Biotechnol. 7, 207–214.

    Article  PubMed  CAS  Google Scholar 

  • Weising K., Weigand F., Driesel A. J., Kahl G., Zischler H. and Epplen J. T. 1989 Polymorphic simple GATA/GACA repeats in plant genomes. Nucleic Acids Res. 17, 10128.

    Article  PubMed  CAS  Google Scholar 

  • Xu Z., Guo X., Gaffney P. M. and Pierce J. C. 2001 Chromosomal location of the major ribosomal RNA genes in Crassostrea virginica and Crassostrea gigas. The Veliger 44, 79–83.

    Google Scholar 

  • Zane L., Bargelloni L. and Patarnello T. 2002 Strategies for microsatellite isolation: a review. Mol. Ecol. 11, 1–16.

    Article  PubMed  CAS  Google Scholar 

  • Zhao L., Khan Z., Hayes K. J. and Glassman A. B. 1998 Interphase fluorescence in situ hybridization analysis: A study using centromeric probes 7, 8, and 12. Ann. Clin. Lab. Sci. 28, 51–56.

    PubMed  CAS  Google Scholar 

  • Zudova D., Rezacova O., Kubickova S. and Rubes J. 2003 Aneuploidy detection in porcine embryos using fluorescence in situ hybridization. Cytogenet. Genome Res. 102, 179–183.

    Article  PubMed  CAS  Google Scholar 

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Authors and Affiliations

  1. Institute for Biotechnology and Bioengineering, Centre of Genetics and Biotechnology, University of Trás-os-Montes and Alto Douro, (IBB/CGB-UTAD), 5001-801, Vila Real, Portugal

    K. Bouilly, R. Chaves, A. Leitão & H. Guedes-Pinto

  2. IPIMAR, Southern Regional Centre of Fisheries Research CRIP-Sul, Avenida 5 de Outubro, 8700-305, Olhão, Portugal

    A. Leitão

  3. IFREMER, Laboratoire de Génétique et Pathologie, 17390, La Tremblade, France

    A. Benabdelmouna

Authors
  1. K. Bouilly
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  2. R. Chaves
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  3. A. Leitão
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  4. A. Benabdelmouna
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  5. H. Guedes-Pinto
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Correspondence to K. Bouilly.

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Bouilly, K., Chaves, R., Leitão, A. et al. Chromosomal organization of simple sequence repeats in the Pacific oyster (Crassostrea gigas): (GGAT)4, (GT)7 and (TA)10 chromosome patterns. J Genet 87, 119–125 (2008). https://doi.org/10.1007/s12041-008-0018-2

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  • DOI: https://doi.org/10.1007/s12041-008-0018-2

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