VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila

Detalhes bibliográficos
Autor(a) principal: Wallau, Gabriel Luz
Data de Publicação: 2016
Outros Autores: Capy, Pierre, Loreto, Elgion, Le Rouzic, Arnaud, Hua-Van, Aurélie
Tipo de documento: Artigo
Idioma: por
Título da fonte: Repositório Institucional da FIOCRUZ (ARCA)
Texto Completo: https://www.arca.fiocruz.br/handle/icict/20899
Resumo: Fundação Oswaldo Cruz. Instituto Aggeu Magalhães. Departamento de Entomologia. Recife, PE, Brasil / Universidade Federal de Santa Maria. Pós Graduação em Biodiversidade Animal. Santa Maria, RS, Brasil.
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spelling Wallau, Gabriel LuzCapy, PierreLoreto, ElgionLe Rouzic, ArnaudHua-Van, Aurélie2017-09-04T14:09:51Z2017-09-04T14:09:51Z2016WALLAU, G. L. et al. VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila. Molecular Biology and Evolution, v. 33, n. 4, p. 1094–1109, abr. 2016.1537-1719https://www.arca.fiocruz.br/handle/icict/2089910.1093/molbev/msv341porElementos de DNA TransponíveisProteínas de Ligação a DNADrosophilaTransferência Genética HorizontalTransposasesDNA Transposable ElementsDNA-Binding ProteinsDrosophilaGene Transfer, HorizontalTransposasesElementos de DNA TransponíveisProteínas de Ligação a DNADrosophilaTransferência Genética HorizontalTransposasesAnimaisEspecificidade da EspécieFilogeniaGenômicaVariação GenéticaEvolução MolecularVHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophilainfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleFundação Oswaldo Cruz. Instituto Aggeu Magalhães. Departamento de Entomologia. Recife, PE, Brasil / Universidade Federal de Santa Maria. Pós Graduação em Biodiversidade Animal. Santa Maria, RS, Brasil.CNRS, IRD, Universit e Paris-Sud. Laboratoire Evolution, Genomes, Comportement, Ecologie. Gif-sur-Yvette, France / Universit e Paris-Saclay. Orsay, France.Universidade Federal de Santa Maria. Pós Graduação em Biodiversidade Animal. Santa Maria, RS, Brasil / Universidade Federal de Santa Maria. Departamento de Bioquımica e Biologia Molecular. Santa Maria, RS, Brasil.CNRS, IRD, Universit e Paris-Sud. Laboratoire Evolution, Genomes, Comportement, Ecologie. Gif-sur-Yvette, France / Universit e Paris-Saclay. Orsay, France.CNRS, IRD, Universit e Paris-Sud. Laboratoire Evolution, Genomes, Comportement, Ecologie. Gif-sur-Yvette, France / Universit e Paris-Saclay. Orsay, France.Transposable elements (TEs) are genomic repeated sequences that display complex evolutionary patterns. They are usually inherited vertically, but can occasionally be transmitted between sexually independent species, through so-called horizontal transposon transfers (HTTs). Recurrent HTTs are supposed to be essential in life cycle of TEs, which are otherwise destined for eventual decay. HTTs also impact the host genome evolution. However, the extent of HTTs in eukaryotes is largely unknown, due to the lack of efficient, statistically supported methods that can be applied to multiple species sequence data sets. Here, we developed a new automated method available as a R package "vhica" that discriminates whether a given TE family was vertically or horizontally transferred, and potentially infers donor and receptor species. The method is well suited for TE sequences extracted from complete genomes, and applicable to multiple TEs and species at the same time. We first validated our method using Drosophila TE families with well-known evolutionary histories, displaying both HTTs and vertical transmission. We then tested 26 different lineages of mariner elements recently characterized in 20 Drosophila genomes, and found HTTs in 24 of them. Furthermore, several independent HTT events could often be detected within the same mariner lineage. The VHICA (Vertical and Horizontal Inheritance Consistence Analysis) method thus appears as a valuable tool to analyze the evolutionary history of TEs across a large range of species.info:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZLICENSElicense.txtlicense.txttext/plain; charset=utf-82991https://www.arca.fiocruz.br/bitstream/icict/20899/1/license.txt5a560609d32a3863062d77ff32785d58MD51ORIGINAL26685176 2016 wal-vhi.oa.pdf26685176 2016 wal-vhi.oa.pdfapplication/pdf1677888https://www.arca.fiocruz.br/bitstream/icict/20899/2/26685176%202016%20wal-vhi.oa.pdfee8f4b273e2f6eb33d63b513a37497fdMD52TEXT26685176 2016 wal-vhi.oa.pdf.txt26685176 2016 wal-vhi.oa.pdf.txtExtracted texttext/plain73567https://www.arca.fiocruz.br/bitstream/icict/20899/3/26685176%202016%20wal-vhi.oa.pdf.txt40ed4e9023ec3194f93e18dfd299d18bMD53icict/208992018-12-26 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dc.title.pt_BR.fl_str_mv VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila
title VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila
spellingShingle VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila
Wallau, Gabriel Luz
Elementos de DNA Transponíveis
Proteínas de Ligação a DNA
Drosophila
Transferência Genética Horizontal
Transposases
DNA Transposable Elements
DNA-Binding Proteins
Drosophila
Gene Transfer, Horizontal
Transposases
Elementos de DNA Transponíveis
Proteínas de Ligação a DNA
Drosophila
Transferência Genética Horizontal
Transposases
Animais
Especificidade da Espécie
Filogenia
Genômica
Variação Genética
Evolução Molecular
title_short VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila
title_full VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila
title_fullStr VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila
title_full_unstemmed VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila
title_sort VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila
author Wallau, Gabriel Luz
author_facet Wallau, Gabriel Luz
Capy, Pierre
Loreto, Elgion
Le Rouzic, Arnaud
Hua-Van, Aurélie
author_role author
author2 Capy, Pierre
Loreto, Elgion
Le Rouzic, Arnaud
Hua-Van, Aurélie
author2_role author
author
author
author
dc.contributor.author.fl_str_mv Wallau, Gabriel Luz
Capy, Pierre
Loreto, Elgion
Le Rouzic, Arnaud
Hua-Van, Aurélie
dc.subject.other.pt_BR.fl_str_mv Elementos de DNA Transponíveis
Proteínas de Ligação a DNA
Drosophila
Transferência Genética Horizontal
Transposases
topic Elementos de DNA Transponíveis
Proteínas de Ligação a DNA
Drosophila
Transferência Genética Horizontal
Transposases
DNA Transposable Elements
DNA-Binding Proteins
Drosophila
Gene Transfer, Horizontal
Transposases
Elementos de DNA Transponíveis
Proteínas de Ligação a DNA
Drosophila
Transferência Genética Horizontal
Transposases
Animais
Especificidade da Espécie
Filogenia
Genômica
Variação Genética
Evolução Molecular
dc.subject.en.pt_BR.fl_str_mv DNA Transposable Elements
DNA-Binding Proteins
Drosophila
Gene Transfer, Horizontal
Transposases
dc.subject.decs.pt_BR.fl_str_mv Elementos de DNA Transponíveis
Proteínas de Ligação a DNA
Drosophila
Transferência Genética Horizontal
Transposases
Animais
Especificidade da Espécie
Filogenia
Genômica
Variação Genética
Evolução Molecular
description Fundação Oswaldo Cruz. Instituto Aggeu Magalhães. Departamento de Entomologia. Recife, PE, Brasil / Universidade Federal de Santa Maria. Pós Graduação em Biodiversidade Animal. Santa Maria, RS, Brasil.
publishDate 2016
dc.date.issued.fl_str_mv 2016
dc.date.accessioned.fl_str_mv 2017-09-04T14:09:51Z
dc.date.available.fl_str_mv 2017-09-04T14:09:51Z
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.citation.fl_str_mv WALLAU, G. L. et al. VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila. Molecular Biology and Evolution, v. 33, n. 4, p. 1094–1109, abr. 2016.
dc.identifier.uri.fl_str_mv https://www.arca.fiocruz.br/handle/icict/20899
dc.identifier.issn.pt_BR.fl_str_mv 1537-1719
dc.identifier.doi.none.fl_str_mv 10.1093/molbev/msv341
identifier_str_mv WALLAU, G. L. et al. VHICA, a New Method to Discriminate between Vertical and Horizontal Transposon Transfer: Application to the Mariner Family within Drosophila. Molecular Biology and Evolution, v. 33, n. 4, p. 1094–1109, abr. 2016.
1537-1719
10.1093/molbev/msv341
url https://www.arca.fiocruz.br/handle/icict/20899
dc.language.iso.fl_str_mv por
language por
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.source.none.fl_str_mv reponame:Repositório Institucional da FIOCRUZ (ARCA)
instname:Fundação Oswaldo Cruz (FIOCRUZ)
instacron:FIOCRUZ
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instacron_str FIOCRUZ
institution FIOCRUZ
reponame_str Repositório Institucional da FIOCRUZ (ARCA)
collection Repositório Institucional da FIOCRUZ (ARCA)
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