A genome-wide screening of BEL-Pao like retrotransposons in Anopheles gambiae by the LTR_STRUC program

Gene

Volumn 357, Issue 2, 2005, Pages 115-121

  Marsano, Renè Massimiliano ^a   Caizzi, Ruggiero ^b  

^a UNIVERSITY OF PARMA   (Italy)

^b UNIVERSITY OF BARI   (Italy)

Author keywords

Multiple alignment; Phylogeny; RT domains; Transposable elements

Indexed keywords

ANOPHELES GAMBIAE; ARTICLE; COMPUTER PROGRAM; DROSOPHILA MELANOGASTER; ENVELOPE GENE; GENE EXPRESSION; GENE SEQUENCE; GENETIC SCREENING; GENOMICS; LONG TERMINAL REPEAT; NONHUMAN; PHYLOGENY; PRIORITY JOURNAL; RETROPOSON;

ANIMALS; ANOPHELES GAMBIAE; COMPUTATIONAL BIOLOGY; GENOME; RETROELEMENTS; SEQUENCE ANALYSIS, DNA; SOFTWARE; TERMINAL REPEAT SEQUENCES;

ANOPHELES GAMBIAE;

EID: 24744467560     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gene.2005.06.010     Document Type: Article

References (26)

1. Z. Bao, and S.R. Eddy Automated de novo identification of repeat sequence families in sequenced genomes Genome Res. 12 2002 1269 1276
2. E. Berezikov, A. Bucheton, and I. Busseau Non-LTR retrotransposons in the genome of Drosophila melanogaster Genome Biol. 1 2000 (research0011.1-0011.15)
3. N.J. Bowen, and J.F. McDonald Genomic analysis of Caenorhabditis elegans reveals ancient families of retroviral-like elements Genome Res. 9 1999 924 935
4. J.M. Cook, J. Martin, A. Lewin, R.E. Sinden, and M. Tristem Systematic screening of Anopheles mosquito genomes yields evidence for a major clade of Pao-like retrotransposons Insect Mol. Biol. 9 2000 109 117
5. T.H. Eickbush, and H.S. Malik The origin and evolution of retrotransposons N.L. Craig R. Craigie M. Gellert A.M. Lambowitz Mobile DNA II 2002 A.S.M. Press Washington, DC 1111 1144
6. I.G. Frame, J.F. Cutfield, and R.T. Poulter New BEL-like LTR-retrotransposons in Fugu rubripes in Caenorhabditis elegans, and Drosophila melanogaster Gene 263 2001 219 230
7. R.A. Holt The genome sequence of the malaria mosquito Anopheles gambiae Science 298 2002 129 149
8. Jurka, J. 2000. Repbase update: a database and an electronic journal of repetitive elements. Trends Genet. 16, 418-420.
9. J.S. Kaminker The transposable elements of the Drosophila melanogaster euchromatin: a genomics perspective Genome Biol. 3 2002 (research0084.1-0084. 200)
10. V.V. Kapitonov, and J. Jurka Molecular paleontology of transposable elements in the Drosophila melanogaster genome Proc. Natl. Acad. Sci. U. S. A. 100 2003 6569 6574
11. M.G. Kidwell, and D. Lisch Perspective: transposable elements, parasitic DNA, and genome evolution Evolution 55 2001 1 24
12. A. Kim, C. Terzian, P. Santamaria, A. Pelisson, N. Prud'homme, and A. Bucheton Retroviruses in invertebrates: The gypsy retrotransposon is apparently an infectious retrovirus of Drosophila melanogaster Proc. Natl. Acad. Sci. U. S. A. 91 1994 1285 1289
13. J.M. Kim, S. Vanguri, J.D. Boeke, A. Gabriel, and D.F. Voytas Transposable elements and genome organization: a comprehensive survey of retrotransposons revealed by the complete Saccharomyces cerevisiae genome sequence Genome Res. 8 1998 464 478
14. H.S. Malik, S. Henikoff, and T.H. Eickbush Poised for contagion: evolutionary origins of the infectious abilities of invertebrate retroviruses Genome Res. 10 2000 1307 1318
15. E.M. McCarthy, and J.F. McDonald LTR_STRUC: a novel search and identification program for LTR retrotransposons Bioinformatics 19 2003 362 367
16. L. Mejlumian, A. Pelisson, A. Bucheton, and C. Terzian Comparative and functional studies of Drosophila species invasion by the gypsy endogenous retrovirus Genetics 160 2002 201 209
17. Y. Misseri, G. Labesse, A. Bucheton, and C. Terzian Comparative sequence analysis and prediction for the envelope glycoproteins of insect endogenous retroviruses Trends Microbiol. 11 2003 253 256
18. H. Quesneville, D. Nouaud, and D. Anxolabéhère Detection of new transposable element families in Drosophila melanogaster and Anopheles gambiae genomes J. Mol. Evol. 57 2003 S50 S59
19. S.U. Song, T. Gerasimova, M. Kurkulos, J.D. Boeke, and V.G. Corces An env-like protein encoded by a Drosophila retroelement: evidence that gypsy is an infectious retrovirus Genes Dev. 8 1994 2046 2057
20. S.T. Szak, O.K. Pickeral, W. Makalowski, M.S. Boguski, D. Landsman, and J.D. Boeke Molecular archeology of L1 insertions in the human genome Genome Biol. 3 2002 (research0052.1-0052.18)
21. J.D. Thompson, D.G. Higgins, and T.J. Gibson CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice Nucleic Acids Res. 22 1994 4673 4680
22. J.D. Thompson, T.J. Gibson, F. Plewniak, F. Jeanmougin, and D.G. Higgins The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools Nucleic Acids Res. 25 1997 4876 4882
23. Z. Tu Eight novel families of miniature inverted repeat transposable elements in the African malaria mosquito, Anopheles gambiae Proc. Natl. Acad. Sci. U. S. A. 98 2001 1699 1704
24. J.M.C. Tubio, J.C. Costas, and H.F. Naveira Evolution of the mgd1 lineage of the Ty3/gypsy group of LTR retrotransposons in Anopheles gambiae Gene 330 2004 123 131
25. J.M.C. Tubio, H. Naveira, and J. Costas Structural and evolutionary analyses of the Ty3/gypsy group of LTR retrotransposons in the genome of Anopheles gambiae Mol. Biol. Evol. 22 2005 29 39
26. Y. Xiong, and T.H. Eickbush Origin and evolution of retroelements based upon their reverse transcriptase sequences EMBO J. 9 1990 3353 3362