Three new satellite sequences and a mobile element found inside HSP70 introns of the Mediterranean mussel (Mytilus galloprovincialis)

Genome

Volumn 49, Issue 11, 2006, Pages 1451-1458

  Kourtidis, Antonis ^a   Drosopoulou, Elena ^a   Pantzartzi, Chrysoula N ^a   Chintiroglou, Chariton C ^b   Scouras, Zacharias G ^a  

^a ARISTOTLE UNIVERSITY OF THESSALONIKI   (Greece)

^b ARISTOTLE UNIVERSITY OF THESSALONIKI   (Greece)

Author keywords

hsc70; hsc71; Mollusca; Pearl; Repetitive DNA; Transposable elements

Indexed keywords

HEAT SHOCK PROTEIN 70; SATELLITE DNA;

ANIMAL; ARTICLE; DNA SEQUENCE; GENETICS; INTRON; MOLECULAR GENETICS; MYTILUS; NUCLEOTIDE SEQUENCE; TRANSPOSON;

ANIMALS; BASE SEQUENCE; DNA TRANSPOSABLE ELEMENTS; DNA, SATELLITE; HSP70 HEAT-SHOCK PROTEINS; INTRONS; MOLECULAR SEQUENCE DATA; MYTILUS; SEQUENCE ANALYSIS, DNA;

BIVALVIA; CRASSOSTREA VIRGINICA; MOLLUSCA; MYTILUS GALLOPROVINCIALIS; OSTREIDAE;

EID: 34247375091     PISSN: 08312796     EISSN: None     Source Type: Journal    
DOI: 10.1139/G06-111     Document Type: Article

References (43)

1. Alexandrov, I., Kazakov, A., Tumeneva, I., Shepelev, V., and Yurov, Y. 2001. Alpha-satellite DNA of primates: old and new families. Chromosoma, 110: 253-266.
2. Altschul, S.F., Gish, W., Miller, W., Myers, E.W., and Lipman, D.J. 1990. Basic local alignment search tool. J. Mol. Biol. 215: 403-410. doi:10.1006/jmbi.1990.9999.
3. Canapa, A., Barucca, M., Celioni, P.N., and Olmo, E. 2000. A satellite DNA containing CENP-B box-like motifs is present in the Antarctic scallop Adamussium colbecki. Gene, 247: 175-180. doi:10.1016/S0378- 1119(00)00101-3.
4. Charlesworth, B., Sniegowski, P., and Stephan, W. 1994. The evolutionary dynamics of repetitive DNA in eukaryotes. Nature, 371: 215-220. doi:10.1038/371215a0.
5. 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. doi:10.1016/0378-1119(95)00749-0.
6. Cohen, J.B., Hoffman-Liebermann, B., and Kedes, L. 1985. Structure and unusual characteristics of a new family of transposable elements in the sea urchin Strongylocentrotus purpuratus. Mol. Cell. Biol. 5: 2804-2813.
7. Feinberg, A.P., and Vogelstein, B. 1984. A technique for radiolabeling DNA restriction endonuclease fragments to high specific activity. Anal. Biochem. 132: 6-13.
8. Felsenstein, J. 1985. Confidence limits on phytogenies: An approach using the bootstrap. Evolution, 39: 783-791. doi:10.2307/2408678.
9. Feschotte, C., Jiang, N., and Wessler, S.R. 2002. Plant transposable elements: where genetics meets genomics. Nat. Rev. Genet. 3: 329-341. doi:10.1038/nrg793.
10. Gaffney, P.M. 2002. CvE: A non-autonomous DNA transposon from the oyster Crassostrea virginica [online]. Available from http://www.girinst.org/ server/RepBase.
11. Gaffney, P.M., Pierce, J.C., Mackinley, A.G., Titchen, D.A., and Glenn, W.K. 2003. Pearl, a novel family of putative transposable elements in bivalve molluscs. J. Mol. Evol. 56: 308-316. doi:10.1007/s00239-002-2402- 5.
12. Garrido-Ramos, M.A., de la Herran, R., Jamilena, M., Lozano, R., Ruiz Rejon, C., and Ruiz Rejon, M. 1999. Evolution of centromeric satellite DNA and its use in phylogenetic studies of the Sparidae family (Pisces, Perciformes). Mol. Phylogenet. Evol. 12: 200-204.
13. Hikosaka, A., Yokouchi, E., and Kawahara, A. 2000. Extensive amplification and transposition of a novel repetitive element, Xstir, together with its terminal inverted repeat in the evolution of Xenopus. J. Mol. Evol. 51: 554-564.
14. Hinegardner, R. 1974. Cellular DNA content of the mollusca. Comp. Biochem. Physiol. A. 47: 447-460. doi:10.1016/0300-9629(74)90008-5.
15. Jasinska, A., and Krzyzosiak, W.J. 2004. Repetitive sequences that shape the human transcriptome. FEBS Lett. 567: 136-141. doi:10.1016/j.febslet. 2004.03.109.
16. Jiang, N., Feschotte, C., Zhang, X., and Wessler, S.R. 2004. Using rice to understand the origin and amplification of miniature inverted repeat transposable elements (MITEs). Curr. Opin. Plant Biol. 7: 115-119. doi:10.1016/j.pbi.2004.01.004.
17. Jurka, J., Kapitonov, V.V., Pavlicek, A., Klonowski, P., Kohany, O., and Walichiewicz, J. 2005. Repbase Update, a database of eukaryotic repetitive elements. Cytogenet. Genome Res. 110: 462-467. doi:10.1159/000084979.
18. Kapitonov, V.V., Holmquist, G.P., and Jurka, J. 1998. L1 repeat is a basic unit of heterochromatin satellites in cetaceans. Mol. Biol. Evol. 15: 611-612.
19. Kourtidis, A., Drosopoulou, E., Nikolaidis, N., Hatzi, V.I., Chintiroglou, C.C., and Scouras, Z.G. 2006. Identification of several cytoplasmic HSP70 genes from the Mediterranean mussel (Mytilus galloprovincialis) and their long-term evolution in Mollusca and Metazoa. J. Mol. Evol. 62: 446-459. doi:10.1007/s00239-005-0121-4.
20. Kumar, S., Tamura, K., Jacobsen, I.B., and Nei, M. 2001. MEGA2: molecular evolutionary genetics analysis software. Bioinformatics, 17: 1244-1245. doi:10.1093/bioinformatics/17.12.1244.
21. Lerman, D.N., and Feder, M.E. 2005. Naturally occurring transposable elements disrupt hsp70 promoter function in Drosophila melanogaster. Mol. Biol. Evol. 22: 776-783.
22. Lerman, D.N., Michalak, P., Helin, A.B., Bettencourt, B.R., and Feder, M.E. 2003. Modification of heat-shock gene expression in Drosophila melanogaster populations via transposable elements. Mol. Biol. Evol. 20: 135-144.
23. Liu, J., and Maxwell, E.S. 1990. Mouse U14 snRNA is encoded in an intron of the mouse cognate hsc70 heat shock gene. Nucleic Acids Res. 18: 6565-6571.
24. López-Flores, I., de la Herrán, R., Garrido-Ramos, M.A., Boudry, P., Ruiz Rejón, C., and Ruiz Rejón, M. 2004. The molecular phytogeny of oysters based on a satellite DNA related to transposons. Gene, 339: 181-188.
25. Martienssen, R.A., and Baulcombe, D.C. 1989. An unusual wheat insertion sequence (WIS1) lies upstream of an alpha-amylase gene in hexaploid wheat, and carries a "minisatellite" array. Mol. Gen. Genet. 217: 401-410. doi:10.1007/BF02464910.
26. Martínez-Lage, A., González-Tizón, A., and Méndez, J. 1994. Characterization of different chromatin types in Mytilus galloprovincialis L. after C-banding, fluorochrome and restriction endonuclease treatments. Heredity, 72: 242-249.
27. Martínez-Lage, A., Rodriguez, F., González-Tizon, A., Prats, E., Cornudella, L., and Méndez, J. 2002. Comparative analysis of different satellite DNAs in four Mytilus species. Genome, 45: 922-929. doi:10.1139/g02-056.
28. Martínez-Lage, A., Rodriguez-Farina, F., González-Tizon, A., and Méndez, J. 2005. Origin and evolution of Mytilus mussel satellite DNAs. Genome, 48: 247-256.
29. Miklos, G.L.G. 1985. Localized highly repetitive DNA sequences in vertebrate and invertebrate genomes. In Molecular evolutionary genetics. Edited by R.J. Macintyre. Plenum Press, New York. pp. 241-321.
30. Miller, W.J., Nagel, A., Bachmann, J., and Bachmann, L. 2000. Evolutionary dynamics of the SGM transposon family in the Drosophila obscura species group. Mol. Biol. Evol. 17: 1597-1609.
31. Munn, T.Z., and Mues, G.I. 1988. Highly conserved repeats in heat-shock introns. Nature, 332: 789. doi:10.1038/332789a0.
32. Nekrutenko, A., and Li, W.H. 2001. Transposable elements are found in a large number of human protein-coding genes. Trends Genet. 17: 619-621. doi:10.1016/S0168-9525(01)02445-3.
33. Noma, K., and Ohtsubo, E. 2000. Tnat1 and Tnat2 from Arabidopsis thaliana: novel transposable elements with tandem repeat sequences. DNA Res. 7: 1-7. doi:10.1093/dnares/7.1.1.
34. Plohl, M., and Cornudella, L. 1996. Characterization of a complex satellite DNA in the mollusc Donax trunculus: analysis of sequence variations and divergence. Gene, 169: 157-164. doi:10.1016/0378-1119(95) 00734-2.
35. Plohl, M., and Cornudella, L. 1997. Characterization of interrelated sequence motifs in four satellite DNAs and their distribution in the genome of the Mollusc Donax trunculus. J. Mol. Evol. 44: 189-198. doi:10.1007/PL00006135.
36. Rice, P., Longden, I., and Bleasby, A. 2000. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 16: 276-277. doi:10.1016/S0168-9525(00)02024-2.
37. Rodríguez-Juíz, A.M., Torrado, M., and Méndez, J. 1996. Genome-size variation in bivalve molluscs determined by flow cytometry. Mar. Biol. 126: 489-497. doi:10.1007/BF00354631.
38. Rosen, S., and Skaletsky, H.J. 2000. Primer3 on the WWW for general users and for biologist programmers. In Bioinformatics methods and protocols: methods in molecular biology. Edited by S. Krawetz and S. Misener. Humana Press, Totowa, N.J. pp. 365-386.
39. Saitou, N., and Nei, M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4: 406-425.
40. Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F., and Higgins, D.G. 1997. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality-analysis tools. Nucleic Acids Res. 25: 4876-4882. doi:10.1093/nar/25.24.4876.
41. Ugarcović, D., and Plohl, M. 2002. Variation in satellite DNA profiles-causes and effects. EMBO J. 21: 5955-5959.
42. Yu, Z., Wright, S.I., and Bureau, T.E. 2000. Mutator-like elements in Arabidopsis thaliana: structure, diversity and evolution. Genetics. 156: 2019-2031.
43. Zuker, C., Cappello, J., Lodish, H., George, F.P., and Chung, S. 1984. Dictyostelium transposable element DIRS-1 has 350-base-pair inverted terminal repeats that contain a heat shock promoter. Proc. Natl. Acad. Sci. U.S.A. 81: 2660-2664. doi:10.1073/pnas.81.9.2660.