Sequence variability of COI in Sigmodontine rodents highlights the taxonomic bottleneck

Detalhes bibliográficos
Autor(a) principal: Barbosa, Lívia Muller
Data de Publicação: 2009
Tipo de documento: Trabalho de conclusão de curso
Idioma: eng
Título da fonte: Repositório Institucional da UFRGS
Texto Completo: http://hdl.handle.net/10183/18979
Resumo: Sigmodontinae is a high diverse rodent subfamily with difficult taxonomic identification, which plays a relevant role in environmental impact assessment and public health. We evaluated cytochrome c oxidase subunit I (COX-I) sequence variability in order to investigate the existence of ‘barcoding gap’ and to assess its phylogenetic potential in evolutionary studies. We generated 130 sequences from 21 species sampled. Also, we added 58 sequences available in Genbank. Preliminary analysis revealed some field misidentifications. Thus, we reclassified them in order to include in the further analysis. The mean distance was 14.7% overall, 15.2% among genera, and 2.4% among species. The ‘barcoding gap’ was found and an unexpected phylogenetic signal was recovered. Although it proved to be a useful tool that can enhance the discovery of biodiversity, the barcoding approach must be also supported by taxonomy and museum collections.
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spelling Barbosa, Lívia MullerFreitas, Thales Renato Ochotorena de2010-03-27T04:15:34Z2009http://hdl.handle.net/10183/18979000731061Sigmodontinae is a high diverse rodent subfamily with difficult taxonomic identification, which plays a relevant role in environmental impact assessment and public health. We evaluated cytochrome c oxidase subunit I (COX-I) sequence variability in order to investigate the existence of ‘barcoding gap’ and to assess its phylogenetic potential in evolutionary studies. We generated 130 sequences from 21 species sampled. Also, we added 58 sequences available in Genbank. Preliminary analysis revealed some field misidentifications. Thus, we reclassified them in order to include in the further analysis. The mean distance was 14.7% overall, 15.2% among genera, and 2.4% among species. The ‘barcoding gap’ was found and an unexpected phylogenetic signal was recovered. Although it proved to be a useful tool that can enhance the discovery of biodiversity, the barcoding approach must be also supported by taxonomy and museum collections.application/pdfengSigmodontinaeBarcodingCOX-1Species identificationSequence variability of COI in Sigmodontine rodents highlights the taxonomic bottleneckinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/bachelorThesisUniversidade Federal do Rio Grande do SulInstituto de BiociênciasPorto Alegre, BR-RS2009Ciências Biológicas: Bachareladograduaçãoinfo:eu-repo/semantics/openAccessreponame:Repositório Institucional da UFRGSinstname:Universidade Federal do Rio Grande do Sul (UFRGS)instacron:UFRGSORIGINAL000731061.pdf000731061.pdfTexto completo (inglês)application/pdf6365349http://www.lume.ufrgs.br/bitstream/10183/18979/1/000731061.pdfddbe8a1460cb2656fd72d39898cbd1d2MD51TEXT000731061.pdf.txt000731061.pdf.txtExtracted Texttext/plain37428http://www.lume.ufrgs.br/bitstream/10183/18979/2/000731061.pdf.txt72a292044d4b20a401f45259ac24656fMD52THUMBNAIL000731061.pdf.jpg000731061.pdf.jpgGenerated Thumbnailimage/jpeg1814http://www.lume.ufrgs.br/bitstream/10183/18979/3/000731061.pdf.jpg5ee3f8df36b014c008358b3ed34f63e0MD5310183/189792021-05-07 05:14:49.287307oai:www.lume.ufrgs.br:10183/18979Repositório de PublicaçõesPUBhttps://lume.ufrgs.br/oai/requestopendoar:2021-05-07T08:14:49Repositório Institucional da UFRGS - Universidade Federal do Rio Grande do Sul (UFRGS)false
dc.title.pt_BR.fl_str_mv Sequence variability of COI in Sigmodontine rodents highlights the taxonomic bottleneck
title Sequence variability of COI in Sigmodontine rodents highlights the taxonomic bottleneck
spellingShingle Sequence variability of COI in Sigmodontine rodents highlights the taxonomic bottleneck
Barbosa, Lívia Muller
Sigmodontinae
Barcoding
COX-1
Species identification
title_short Sequence variability of COI in Sigmodontine rodents highlights the taxonomic bottleneck
title_full Sequence variability of COI in Sigmodontine rodents highlights the taxonomic bottleneck
title_fullStr Sequence variability of COI in Sigmodontine rodents highlights the taxonomic bottleneck
title_full_unstemmed Sequence variability of COI in Sigmodontine rodents highlights the taxonomic bottleneck
title_sort Sequence variability of COI in Sigmodontine rodents highlights the taxonomic bottleneck
author Barbosa, Lívia Muller
author_facet Barbosa, Lívia Muller
author_role author
dc.contributor.author.fl_str_mv Barbosa, Lívia Muller
dc.contributor.advisor1.fl_str_mv Freitas, Thales Renato Ochotorena de
contributor_str_mv Freitas, Thales Renato Ochotorena de
dc.subject.por.fl_str_mv Sigmodontinae
topic Sigmodontinae
Barcoding
COX-1
Species identification
dc.subject.eng.fl_str_mv Barcoding
COX-1
Species identification
description Sigmodontinae is a high diverse rodent subfamily with difficult taxonomic identification, which plays a relevant role in environmental impact assessment and public health. We evaluated cytochrome c oxidase subunit I (COX-I) sequence variability in order to investigate the existence of ‘barcoding gap’ and to assess its phylogenetic potential in evolutionary studies. We generated 130 sequences from 21 species sampled. Also, we added 58 sequences available in Genbank. Preliminary analysis revealed some field misidentifications. Thus, we reclassified them in order to include in the further analysis. The mean distance was 14.7% overall, 15.2% among genera, and 2.4% among species. The ‘barcoding gap’ was found and an unexpected phylogenetic signal was recovered. Although it proved to be a useful tool that can enhance the discovery of biodiversity, the barcoding approach must be also supported by taxonomy and museum collections.
publishDate 2009
dc.date.issued.fl_str_mv 2009
dc.date.accessioned.fl_str_mv 2010-03-27T04:15:34Z
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