Polymorphisms and ambiguous sites present in DNA sequences of Leishmania clones: Looking closer

Detalhes bibliográficos
Autor(a) principal: Boité, Mariana Côrtes
Data de Publicação: 2014
Outros Autores: Oliveira, Taíse Salgado de, Ferreira, Gabriel Eduardo Melim, Trannin, Marcos, Santos, Barbara Neves dos, Porrozzi, Renato, Cupolillo, Elisa
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da FIOCRUZ (ARCA)
Texto Completo: https://www.arca.fiocruz.br/handle/icict/10696
Resumo: Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Pesquisa em Leishmaniose. Rio de Janeiro, RJ, Brasil.
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spelling Boité, Mariana CôrtesOliveira, Taíse Salgado deFerreira, Gabriel Eduardo MelimTrannin, MarcosSantos, Barbara Neves dosPorrozzi, RenatoCupolillo, Elisa2015-06-08T14:01:51Z2015-06-08T14:01:51Z2014BOITÉ, Maraiana Côrtes et al. Polymorphisms and ambiguous sites present in DNA sequences of Leishmania clones: Looking closer. Infection, Genetics and Evolution, v.25, p.110-116, jul. 2014.1567-1348https://www.arca.fiocruz.br/handle/icict/1069610.1016/j.meegid.2014.04.011engElsevierLeishmaniaDNALeishmaniaPolyclonalAneuploidyHeterozygosisAneuploidiaLeishmaniaPolymorphisms and ambiguous sites present in DNA sequences of Leishmania clones: Looking closerinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleFundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Pesquisa em Leishmaniose. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Pesquisa em Leishmaniose. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Pesquisa em Leishmaniose. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Pesquisa em Leishmaniose. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Pesquisa em Leishmaniose. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Pesquisa em Leishmaniose. Rio de Janeiro, RJ, Brasil.In genetic studies of Leishmania parasites, co-dominant markers are chosen for their ability to detect heterozygous polymorphisms, to infer the occurrence of inbreeding and to resolve genetic variability. The majority of DNA sequence based reports perform conventional dye terminator cycle sequencing where perfectly ambiguous sites or double peaks in the chromatogram are interpreted as heterozygous strains. However, molecular peculiarities of the parasite such as aneuploidy, mixed populations and homologous recombination advise that data from regular DNA sequence analysis should be carefully evaluated. We report here a closer look at ambiguous sites observed in 6pgd DNA sequences obtained for a multilocus sequence analysis project on Leishmania (Viannia) strains. After comparing 286 DNA sequences from biological and molecular clones of six L. (Viannia) strains we could distinguish events that contribute to genetic variation in Leishmania (recombination, mutation, chromosomal mosaics). Also, the results suggest how diversity might not be completely revealed through regular DNA sequence analysis and demonstrate the importance for molecular epidemiology research to be aware of such possibilities while choosing samples for studies.info:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZLICENSElicense.txttext/plain1914https://www.arca.fiocruz.br/bitstream/icict/10696/1/license.txt7d48279ffeed55da8dfe2f8e81f3b81fMD51ORIGINALmariana_boite2etal_IOC_2014.pdfapplication/pdf563268https://www.arca.fiocruz.br/bitstream/icict/10696/2/mariana_boite2etal_IOC_2014.pdffc1be1fe16dbb897960829cea0f2687fMD52TEXTmariana_boite2etal_IOC_2014.pdf.txtmariana_boite2etal_IOC_2014.pdf.txtExtracted texttext/plain39632https://www.arca.fiocruz.br/bitstream/icict/10696/3/mariana_boite2etal_IOC_2014.pdf.txt1b5f3789123258c97628ae85dca5eaceMD53icict/106962022-06-24 12:17:39.87oai:www.arca.fiocruz.br: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ório InstitucionalPUBhttps://www.arca.fiocruz.br/oai/requestrepositorio.arca@fiocruz.bropendoar:21352022-06-24T15:17:39Repositório Institucional da FIOCRUZ (ARCA) - Fundação Oswaldo Cruz (FIOCRUZ)false
dc.title.pt_BR.fl_str_mv Polymorphisms and ambiguous sites present in DNA sequences of Leishmania clones: Looking closer
title Polymorphisms and ambiguous sites present in DNA sequences of Leishmania clones: Looking closer
spellingShingle Polymorphisms and ambiguous sites present in DNA sequences of Leishmania clones: Looking closer
Boité, Mariana Côrtes
Leishmania
DNA
Leishmania
Polyclonal
Aneuploidy
Heterozygosis
Aneuploidia
Leishmania
title_short Polymorphisms and ambiguous sites present in DNA sequences of Leishmania clones: Looking closer
title_full Polymorphisms and ambiguous sites present in DNA sequences of Leishmania clones: Looking closer
title_fullStr Polymorphisms and ambiguous sites present in DNA sequences of Leishmania clones: Looking closer
title_full_unstemmed Polymorphisms and ambiguous sites present in DNA sequences of Leishmania clones: Looking closer
title_sort Polymorphisms and ambiguous sites present in DNA sequences of Leishmania clones: Looking closer
author Boité, Mariana Côrtes
author_facet Boité, Mariana Côrtes
Oliveira, Taíse Salgado de
Ferreira, Gabriel Eduardo Melim
Trannin, Marcos
Santos, Barbara Neves dos
Porrozzi, Renato
Cupolillo, Elisa
author_role author
author2 Oliveira, Taíse Salgado de
Ferreira, Gabriel Eduardo Melim
Trannin, Marcos
Santos, Barbara Neves dos
Porrozzi, Renato
Cupolillo, Elisa
author2_role author
author
author
author
author
author
dc.contributor.author.fl_str_mv Boité, Mariana Côrtes
Oliveira, Taíse Salgado de
Ferreira, Gabriel Eduardo Melim
Trannin, Marcos
Santos, Barbara Neves dos
Porrozzi, Renato
Cupolillo, Elisa
dc.subject.other.pt_BR.fl_str_mv Leishmania
DNA
topic Leishmania
DNA
Leishmania
Polyclonal
Aneuploidy
Heterozygosis
Aneuploidia
Leishmania
dc.subject.en.pt_BR.fl_str_mv Leishmania
Polyclonal
Aneuploidy
Heterozygosis
dc.subject.decs.pt_BR.fl_str_mv Aneuploidia
Leishmania
description Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Pesquisa em Leishmaniose. Rio de Janeiro, RJ, Brasil.
publishDate 2014
dc.date.issued.fl_str_mv 2014
dc.date.accessioned.fl_str_mv 2015-06-08T14:01:51Z
dc.date.available.fl_str_mv 2015-06-08T14:01:51Z
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 BOITÉ, Maraiana Côrtes et al. Polymorphisms and ambiguous sites present in DNA sequences of Leishmania clones: Looking closer. Infection, Genetics and Evolution, v.25, p.110-116, jul. 2014.
dc.identifier.uri.fl_str_mv https://www.arca.fiocruz.br/handle/icict/10696
dc.identifier.issn.pt_BR.fl_str_mv 1567-1348
dc.identifier.doi.pt_BR.fl_str_mv 10.1016/j.meegid.2014.04.011
identifier_str_mv BOITÉ, Maraiana Côrtes et al. Polymorphisms and ambiguous sites present in DNA sequences of Leishmania clones: Looking closer. Infection, Genetics and Evolution, v.25, p.110-116, jul. 2014.
1567-1348
10.1016/j.meegid.2014.04.011
url https://www.arca.fiocruz.br/handle/icict/10696
dc.language.iso.fl_str_mv eng
language eng
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
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dc.publisher.none.fl_str_mv Elsevier
publisher.none.fl_str_mv Elsevier
dc.source.none.fl_str_mv reponame:Repositório Institucional da FIOCRUZ (ARCA)
instname:Fundação Oswaldo Cruz (FIOCRUZ)
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