Phylogenomics-based reconstruction of protozoan species tree

Detalhes bibliográficos
Autor(a) principal: Ocaña, Kary A. C. S.
Data de Publicação: 2011
Outros Autores: Dávila, Alberto M. R.
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da FIOCRUZ (ARCA)
Texto Completo: https://www.arca.fiocruz.br/handle/icict/15991
Resumo: Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Biologia Celular e Molecular. Rio de Janeiro, RJ, Brasil.
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spelling Ocaña, Kary A. C. S.Dávila, Alberto M. R.2016-09-29T11:01:39Z2016-09-29T11:01:39Z2011OCÃNA, Kary A. C. S.; DÁVILA, Alberto M. R. Phylogenomics-Based Reconstruction of Protozoan Species Tree. Evolutionary Bioinformatics, v.7, p.107-121, 2011.1176-9343https://www.arca.fiocruz.br/handle/icict/1599110.4137/EBO.S6861engLibertas AcademicaFilogenómicaProtozoários parasitasprotozoan parasitesphylogenomicsuniversal orthologsPhylogenomics-based reconstruction of protozoan species treeinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleFundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Biologia Celular e Molecular. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Biologia Computacional e de SAistemas. Rio de Janeiro, RJ, Brasil / Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Pólo de Biologia Computacional e Sistemas. Rio de Janeiro, RJ, Brasil.We have developed a semi-automatic methodology to reconstruct the phylogenetic species tree in Protozoa, integrating different phylogenetic algorithms and programs, and demonstrating the utility of a supermatrix approach to construct phylogenomics-based trees using 31 universal orthologs (UO). The species tree obtained was formed by three major clades that were related to three groups of data: i) Species containing at least 80% of UO (25/31) in the concatenated multiple alignment or supermatrix, this clade was called C1, ii) Species containing between 50%-79% (15-24/31) of UO called C2, and iii) Species containing less than 50% (1-14/31) of UO called C3. C1 was composed by only protozoan species, C2 was composed by species related to Protozoa, and C3 was composed by some species of C1 (Protozoa) and C2 (related to Protozoa). Our phylogenomics-based methodology using a supermatrix approach proved to be reliable with protozoan genome data and using at least 25 UO, suggesting that (a) the more UO used the better, (b) using the entire UO sequence or just a conserved block of it for the supermatrix produced similar phylogenomic trees.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/15991/1/license.txt5a560609d32a3863062d77ff32785d58MD51ORIGINALkary_ocana_avila_IOC_2011.pdfkary_ocana_avila_IOC_2011.pdfapplication/pdf1076385https://www.arca.fiocruz.br/bitstream/icict/15991/2/kary_ocana_avila_IOC_2011.pdfe21bd45d1193829abf532328390cd467MD52TEXTkary_ocana_avila_IOC_2011.pdf.txtkary_ocana_avila_IOC_2011.pdf.txtExtracted 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dc.title.pt_BR.fl_str_mv Phylogenomics-based reconstruction of protozoan species tree
title Phylogenomics-based reconstruction of protozoan species tree
spellingShingle Phylogenomics-based reconstruction of protozoan species tree
Ocaña, Kary A. C. S.
Filogenómica
Protozoários parasitas
protozoan parasites
phylogenomics
universal orthologs
title_short Phylogenomics-based reconstruction of protozoan species tree
title_full Phylogenomics-based reconstruction of protozoan species tree
title_fullStr Phylogenomics-based reconstruction of protozoan species tree
title_full_unstemmed Phylogenomics-based reconstruction of protozoan species tree
title_sort Phylogenomics-based reconstruction of protozoan species tree
author Ocaña, Kary A. C. S.
author_facet Ocaña, Kary A. C. S.
Dávila, Alberto M. R.
author_role author
author2 Dávila, Alberto M. R.
author2_role author
dc.contributor.author.fl_str_mv Ocaña, Kary A. C. S.
Dávila, Alberto M. R.
dc.subject.other.pt_BR.fl_str_mv Filogenómica
Protozoários parasitas
topic Filogenómica
Protozoários parasitas
protozoan parasites
phylogenomics
universal orthologs
dc.subject.en.pt_BR.fl_str_mv protozoan parasites
phylogenomics
universal orthologs
description Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Biologia Celular e Molecular. Rio de Janeiro, RJ, Brasil.
publishDate 2011
dc.date.issued.fl_str_mv 2011
dc.date.accessioned.fl_str_mv 2016-09-29T11:01:39Z
dc.date.available.fl_str_mv 2016-09-29T11:01:39Z
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 OCÃNA, Kary A. C. S.; DÁVILA, Alberto M. R. Phylogenomics-Based Reconstruction of Protozoan Species Tree. Evolutionary Bioinformatics, v.7, p.107-121, 2011.
dc.identifier.uri.fl_str_mv https://www.arca.fiocruz.br/handle/icict/15991
dc.identifier.issn.pt_BR.fl_str_mv 1176-9343
dc.identifier.doi.none.fl_str_mv 10.4137/EBO.S6861
identifier_str_mv OCÃNA, Kary A. C. S.; DÁVILA, Alberto M. R. Phylogenomics-Based Reconstruction of Protozoan Species Tree. Evolutionary Bioinformatics, v.7, p.107-121, 2011.
1176-9343
10.4137/EBO.S6861
url https://www.arca.fiocruz.br/handle/icict/15991
dc.language.iso.fl_str_mv eng
language eng
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.publisher.none.fl_str_mv Libertas Academica
publisher.none.fl_str_mv Libertas Academica
dc.source.none.fl_str_mv reponame:Repositório Institucional da FIOCRUZ (ARCA)
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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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