Sequence heterogeneity and phylogenetic relationships between the copia retrotransposon in Drosophila species of the repleta and melanogaster groups
Autor(a) principal: | |
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Data de Publicação: | 2006 |
Outros Autores: | |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.1051/gse:2006020 http://hdl.handle.net/11449/38368 |
Resumo: | Although the retrotransposon copia has been studied in the melanogaster group of Drosophila species, very little is known about copia dynamism and evolution in other groups. We analyzed the occurrence and heterogeneity of the copia 5' LTR-ULR partial sequence and their phylogenetic relationships in 24 species of the repleta group of Drosophila. PCR showed that copia occurs in 18 out of the 24 species evaluated. Sequencing was possible in only eight species. The sequences showed a low nucleotide diversity, which suggests selective constraints maintaining this regulatory region over evolutionary time. on the contrary, the low nucleotide divergence and the phylogenetic relationships between the D. willistoni/Zaprionus tuberculatus/melanogaster species subgroup suggest horizontal transfer. Sixteen transcription factor binding sites were identified in the LTR-ULR repleta and melanogaster consensus sequences. However, these motifs are not homologous, neither according to their position in the LTR-ULR sequences, nor according to their sequences. Taken together, the low motif homologies, the phylogenetic relationship and the great nucleotide divergence between the melanogaster and repleta copia sequences reinforce the hypothesis that there are two copia families. |
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Repositório Institucional da UNESP |
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Sequence heterogeneity and phylogenetic relationships between the copia retrotransposon in Drosophila species of the repleta and melanogaster groupscopia retrotransposonnucleotide diversitycopia familiesAlthough the retrotransposon copia has been studied in the melanogaster group of Drosophila species, very little is known about copia dynamism and evolution in other groups. We analyzed the occurrence and heterogeneity of the copia 5' LTR-ULR partial sequence and their phylogenetic relationships in 24 species of the repleta group of Drosophila. PCR showed that copia occurs in 18 out of the 24 species evaluated. Sequencing was possible in only eight species. The sequences showed a low nucleotide diversity, which suggests selective constraints maintaining this regulatory region over evolutionary time. on the contrary, the low nucleotide divergence and the phylogenetic relationships between the D. willistoni/Zaprionus tuberculatus/melanogaster species subgroup suggest horizontal transfer. Sixteen transcription factor binding sites were identified in the LTR-ULR repleta and melanogaster consensus sequences. However, these motifs are not homologous, neither according to their position in the LTR-ULR sequences, nor according to their sequences. Taken together, the low motif homologies, the phylogenetic relationship and the great nucleotide divergence between the melanogaster and repleta copia sequences reinforce the hypothesis that there are two copia families.Univ Estadual Paulista, Dept Biol, BR-15054000 Sao Jose do Rio Preto, SP, BrazilUniv Estadual Paulista, Dept Biol, BR-15054000 Sao Jose do Rio Preto, SP, BrazilEdp Sciences S AUniversidade Estadual Paulista (Unesp)De Almeida, Luciane M.Carareto, Claudia M. A.2014-05-20T15:28:35Z2014-05-20T15:28:35Z2006-09-01info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article535-550application/pdfhttp://dx.doi.org/10.1051/gse:2006020Genetics Selection Evolution. Les Ulis Cedex A: Edp Sciences S A, v. 38, n. 5, p. 535-550, 2006.0999-193Xhttp://hdl.handle.net/11449/3836810.1051/gse:2006020WOS:000240329300007WOS000240329300007.pdf34257729983192160000-0002-0298-1354Web of Sciencereponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengGenetics Selection Evolution3.743info:eu-repo/semantics/openAccess2023-11-28T06:17:09Zoai:repositorio.unesp.br:11449/38368Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T18:58:35.131680Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
Sequence heterogeneity and phylogenetic relationships between the copia retrotransposon in Drosophila species of the repleta and melanogaster groups |
title |
Sequence heterogeneity and phylogenetic relationships between the copia retrotransposon in Drosophila species of the repleta and melanogaster groups |
spellingShingle |
Sequence heterogeneity and phylogenetic relationships between the copia retrotransposon in Drosophila species of the repleta and melanogaster groups De Almeida, Luciane M. copia retrotransposon nucleotide diversity copia families |
title_short |
Sequence heterogeneity and phylogenetic relationships between the copia retrotransposon in Drosophila species of the repleta and melanogaster groups |
title_full |
Sequence heterogeneity and phylogenetic relationships between the copia retrotransposon in Drosophila species of the repleta and melanogaster groups |
title_fullStr |
Sequence heterogeneity and phylogenetic relationships between the copia retrotransposon in Drosophila species of the repleta and melanogaster groups |
title_full_unstemmed |
Sequence heterogeneity and phylogenetic relationships between the copia retrotransposon in Drosophila species of the repleta and melanogaster groups |
title_sort |
Sequence heterogeneity and phylogenetic relationships between the copia retrotransposon in Drosophila species of the repleta and melanogaster groups |
author |
De Almeida, Luciane M. |
author_facet |
De Almeida, Luciane M. Carareto, Claudia M. A. |
author_role |
author |
author2 |
Carareto, Claudia M. A. |
author2_role |
author |
dc.contributor.none.fl_str_mv |
Universidade Estadual Paulista (Unesp) |
dc.contributor.author.fl_str_mv |
De Almeida, Luciane M. Carareto, Claudia M. A. |
dc.subject.por.fl_str_mv |
copia retrotransposon nucleotide diversity copia families |
topic |
copia retrotransposon nucleotide diversity copia families |
description |
Although the retrotransposon copia has been studied in the melanogaster group of Drosophila species, very little is known about copia dynamism and evolution in other groups. We analyzed the occurrence and heterogeneity of the copia 5' LTR-ULR partial sequence and their phylogenetic relationships in 24 species of the repleta group of Drosophila. PCR showed that copia occurs in 18 out of the 24 species evaluated. Sequencing was possible in only eight species. The sequences showed a low nucleotide diversity, which suggests selective constraints maintaining this regulatory region over evolutionary time. on the contrary, the low nucleotide divergence and the phylogenetic relationships between the D. willistoni/Zaprionus tuberculatus/melanogaster species subgroup suggest horizontal transfer. Sixteen transcription factor binding sites were identified in the LTR-ULR repleta and melanogaster consensus sequences. However, these motifs are not homologous, neither according to their position in the LTR-ULR sequences, nor according to their sequences. Taken together, the low motif homologies, the phylogenetic relationship and the great nucleotide divergence between the melanogaster and repleta copia sequences reinforce the hypothesis that there are two copia families. |
publishDate |
2006 |
dc.date.none.fl_str_mv |
2006-09-01 2014-05-20T15:28:35Z 2014-05-20T15:28:35Z |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://dx.doi.org/10.1051/gse:2006020 Genetics Selection Evolution. Les Ulis Cedex A: Edp Sciences S A, v. 38, n. 5, p. 535-550, 2006. 0999-193X http://hdl.handle.net/11449/38368 10.1051/gse:2006020 WOS:000240329300007 WOS000240329300007.pdf 3425772998319216 0000-0002-0298-1354 |
url |
http://dx.doi.org/10.1051/gse:2006020 http://hdl.handle.net/11449/38368 |
identifier_str_mv |
Genetics Selection Evolution. Les Ulis Cedex A: Edp Sciences S A, v. 38, n. 5, p. 535-550, 2006. 0999-193X 10.1051/gse:2006020 WOS:000240329300007 WOS000240329300007.pdf 3425772998319216 0000-0002-0298-1354 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Genetics Selection Evolution 3.743 |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
535-550 application/pdf |
dc.publisher.none.fl_str_mv |
Edp Sciences S A |
publisher.none.fl_str_mv |
Edp Sciences S A |
dc.source.none.fl_str_mv |
Web of Science reponame:Repositório Institucional da UNESP instname:Universidade Estadual Paulista (UNESP) instacron:UNESP |
instname_str |
Universidade Estadual Paulista (UNESP) |
instacron_str |
UNESP |
institution |
UNESP |
reponame_str |
Repositório Institucional da UNESP |
collection |
Repositório Institucional da UNESP |
repository.name.fl_str_mv |
Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP) |
repository.mail.fl_str_mv |
|
_version_ |
1808129005936705536 |