Enhanced primers for amplification of DNA barcodes from a broad range of marine metazoans
Autor(a) principal: | |
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Data de Publicação: | 2013 |
Outros Autores: | , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
Texto Completo: | http://hdl.handle.net/1822/63799 |
Resumo: | Background Building reference libraries of DNA barcodes is relatively straightforward when specifically designed primers are available to amplify the COI-5P region from a relatively narrow taxonomic group (e.g. single class or single order). DNA barcoding marine communities have been comparatively harder to accomplish due to the broad taxonomic diversity and lack of consistently efficient primers. Although some of the so-called “universal” primers have been relatively successful, they still fail to amplify COI-5P of many marine animal groups, while displaying random success even among species within each group. Here we propose a new pair of primers designed to enhance amplification of the COI-5P region in a wide range of marine organisms. Results Amplification tests conducted on a wide range of marine animal taxa, rendered possible the first–time sequencing of DNA barcodes from eight separated phyla (Annelida, Arthropoda, Chordata, Cnidaria, Echinodermata, Mollusca, Nemertea and Platyhelminthes), comprising a total of 14 classes, 28 orders, 57 families, 68 genus and 76 species. Conclusions These primers demonstrated to be highly cost-effective, which is of key importance for DNA barcoding procedures, such as for building comprehensive DNA barcode libraries of marine communities, where the processing of a large numbers of specimens from a wide variety of marine taxa is compulsory. |
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Enhanced primers for amplification of DNA barcodes from a broad range of marine metazoansAnimalsAquatic OrganismsDNA PrimersInvertebratesSequence AlignmentDNA Barcoding, TaxonomicUniversal primersDNA barcodingTaxonomyMarine metazoansEngenharia e Tecnologia::Biotecnologia AmbientalScience & TechnologyBackground Building reference libraries of DNA barcodes is relatively straightforward when specifically designed primers are available to amplify the COI-5P region from a relatively narrow taxonomic group (e.g. single class or single order). DNA barcoding marine communities have been comparatively harder to accomplish due to the broad taxonomic diversity and lack of consistently efficient primers. Although some of the so-called “universal” primers have been relatively successful, they still fail to amplify COI-5P of many marine animal groups, while displaying random success even among species within each group. Here we propose a new pair of primers designed to enhance amplification of the COI-5P region in a wide range of marine organisms. Results Amplification tests conducted on a wide range of marine animal taxa, rendered possible the first–time sequencing of DNA barcodes from eight separated phyla (Annelida, Arthropoda, Chordata, Cnidaria, Echinodermata, Mollusca, Nemertea and Platyhelminthes), comprising a total of 14 classes, 28 orders, 57 families, 68 genus and 76 species. Conclusions These primers demonstrated to be highly cost-effective, which is of key importance for DNA barcoding procedures, such as for building comprehensive DNA barcode libraries of marine communities, where the processing of a large numbers of specimens from a wide variety of marine taxa is compulsory.This work was supported by FEDER through POFC-COMPETE and by national funds from "Fundacao para a Ciencia e a Tecnologia (FCT)" in the scope of the grants FCOMP-01-0124-FEDER-015429 and PEst-C/BIA/UI4050/2011. Jorge Lobo is supported by a FCT PhD grant (SFRH/BD/69750/2010). Pedro M Costa is supported by a FCT post-doc grant (SFRH/BPD/72564/2010). Filipe O Costa benefitted from the Marie Curie European Reintegration Grant PERG02-GA-2007-224890, provided by the European Commission. The authors would also like to thank Carolina Madeira and Monica Landi for the initial molecular experiments, Luisa Borges and Ronaldo Sousa for the support on collections, Catia Bartilotti (IPMA), Nuno Gomes (CBMA) for the offer of crustacean specimens and Artur Oliveira (CBMA) for the alga specimen. PEst-C/BIA/UI4050/2011BMCUniversidade do MinhoLobo, JorgeCosta, Pedro M.Teixeira, Marcos A. L.Ferreira, Maria S. G.Costa, Maria H.Costa, Filipe O.2013-09-102013-09-10T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/1822/63799engLobo, J., Costa, P. M., Teixeira, M. A., et. al. (2013). Enhanced primers for amplification of DNA barcodes from a broad range of marine metazoans. BMC ecology, 13(1), 341472-678510.1186/1472-6785-13-3424020880https://bmcecol.biomedcentral.com/track/pdf/10.1186/1472-6785-13-34info:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2023-07-21T12:34:12Zoai:repositorium.sdum.uminho.pt:1822/63799Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T19:29:50.188441Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse |
dc.title.none.fl_str_mv |
Enhanced primers for amplification of DNA barcodes from a broad range of marine metazoans |
title |
Enhanced primers for amplification of DNA barcodes from a broad range of marine metazoans |
spellingShingle |
Enhanced primers for amplification of DNA barcodes from a broad range of marine metazoans Lobo, Jorge Animals Aquatic Organisms DNA Primers Invertebrates Sequence Alignment DNA Barcoding, Taxonomic Universal primers DNA barcoding Taxonomy Marine metazoans Engenharia e Tecnologia::Biotecnologia Ambiental Science & Technology |
title_short |
Enhanced primers for amplification of DNA barcodes from a broad range of marine metazoans |
title_full |
Enhanced primers for amplification of DNA barcodes from a broad range of marine metazoans |
title_fullStr |
Enhanced primers for amplification of DNA barcodes from a broad range of marine metazoans |
title_full_unstemmed |
Enhanced primers for amplification of DNA barcodes from a broad range of marine metazoans |
title_sort |
Enhanced primers for amplification of DNA barcodes from a broad range of marine metazoans |
author |
Lobo, Jorge |
author_facet |
Lobo, Jorge Costa, Pedro M. Teixeira, Marcos A. L. Ferreira, Maria S. G. Costa, Maria H. Costa, Filipe O. |
author_role |
author |
author2 |
Costa, Pedro M. Teixeira, Marcos A. L. Ferreira, Maria S. G. Costa, Maria H. Costa, Filipe O. |
author2_role |
author author author author author |
dc.contributor.none.fl_str_mv |
Universidade do Minho |
dc.contributor.author.fl_str_mv |
Lobo, Jorge Costa, Pedro M. Teixeira, Marcos A. L. Ferreira, Maria S. G. Costa, Maria H. Costa, Filipe O. |
dc.subject.por.fl_str_mv |
Animals Aquatic Organisms DNA Primers Invertebrates Sequence Alignment DNA Barcoding, Taxonomic Universal primers DNA barcoding Taxonomy Marine metazoans Engenharia e Tecnologia::Biotecnologia Ambiental Science & Technology |
topic |
Animals Aquatic Organisms DNA Primers Invertebrates Sequence Alignment DNA Barcoding, Taxonomic Universal primers DNA barcoding Taxonomy Marine metazoans Engenharia e Tecnologia::Biotecnologia Ambiental Science & Technology |
description |
Background Building reference libraries of DNA barcodes is relatively straightforward when specifically designed primers are available to amplify the COI-5P region from a relatively narrow taxonomic group (e.g. single class or single order). DNA barcoding marine communities have been comparatively harder to accomplish due to the broad taxonomic diversity and lack of consistently efficient primers. Although some of the so-called “universal” primers have been relatively successful, they still fail to amplify COI-5P of many marine animal groups, while displaying random success even among species within each group. Here we propose a new pair of primers designed to enhance amplification of the COI-5P region in a wide range of marine organisms. Results Amplification tests conducted on a wide range of marine animal taxa, rendered possible the first–time sequencing of DNA barcodes from eight separated phyla (Annelida, Arthropoda, Chordata, Cnidaria, Echinodermata, Mollusca, Nemertea and Platyhelminthes), comprising a total of 14 classes, 28 orders, 57 families, 68 genus and 76 species. Conclusions These primers demonstrated to be highly cost-effective, which is of key importance for DNA barcoding procedures, such as for building comprehensive DNA barcode libraries of marine communities, where the processing of a large numbers of specimens from a wide variety of marine taxa is compulsory. |
publishDate |
2013 |
dc.date.none.fl_str_mv |
2013-09-10 2013-09-10T00:00:00Z |
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://hdl.handle.net/1822/63799 |
url |
http://hdl.handle.net/1822/63799 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Lobo, J., Costa, P. M., Teixeira, M. A., et. al. (2013). Enhanced primers for amplification of DNA barcodes from a broad range of marine metazoans. BMC ecology, 13(1), 34 1472-6785 10.1186/1472-6785-13-34 24020880 https://bmcecol.biomedcentral.com/track/pdf/10.1186/1472-6785-13-34 |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
application/pdf |
dc.publisher.none.fl_str_mv |
BMC |
publisher.none.fl_str_mv |
BMC |
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Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
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