Species detection from aquatic eDNA: assessing the importance of capture methods

Detalhes bibliográficos
Autor(a) principal: Peixoto, Sara
Data de Publicação: 2021
Outros Autores: Chaves, Cátia, Velo-Antón, Guillermo, Beja, Pedro, Egeter, Bastian
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10400.5/21417
Resumo: Original Research
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spelling Species detection from aquatic eDNA: assessing the importance of capture methodsamphibians,capture methodsenvironmental DNAPCR replication thresholdsSalamandra salamandraOriginal ResearchEnvironmental DNA (eDNA) is increasingly used for biodiversity monitoring, particularly in aquatic systems. However, each step, from sample collection to bioinformatic analysis, can introduce biases and influence the reliability of results. While much effort has been put into the optimization of laboratory methods, less attention has been devoted to estimate the impacts of eDNA capture methods. To address this issue, water samples were collected at nine small ponds and puddles where up to 10 amphibian species occur, using precipitation, disc filters, and capsules. We focused on targeted detection of an amphibian species, Salamandra salamandra, and on the composition of the whole amphibian community. Species detection was performed using a novel qPCR assay for S. salamandra and high-throughput sequencing, combined with stringent versus relaxed PCR replication thresholds. Filtration techniques (disc filters and capsules) outperformed precipitation, generating a higher number of detections of S. salamandra and higher amounts of captured eDNA, while species detection was identical between disc filters and capsules. There were no significant differences between capture methods regarding amphibian community composition. The variation in detection success associated with capture methods was far higher than that associated with PCR replication, regardless of the detection method used. Our results highlight the importance of choosing a suitable capture method for eDNA studies and suggest that the choice of capture method outweighs the choice of detection method used. To the best of our knowledge, this is the first study to compare high-capacity capsules with common eDNA methods for water samples, such as precipitation and standard disc filtersWileyRepositório da Universidade de LisboaPeixoto, SaraChaves, CátiaVelo-Antón, GuillermoBeja, PedroEgeter, Bastian2021-06-02T13:38:14Z20212021-01-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10400.5/21417engEnvironmental DNA. 2021;3:435–44810.1002/edn3.130info: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:RCAAP2023-03-06T14:50:52Zoai:www.repository.utl.pt:10400.5/21417Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T17:06:00.514280Repositório 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 Species detection from aquatic eDNA: assessing the importance of capture methods
title Species detection from aquatic eDNA: assessing the importance of capture methods
spellingShingle Species detection from aquatic eDNA: assessing the importance of capture methods
Peixoto, Sara
amphibians,
capture methods
environmental DNA
PCR replication thresholds
Salamandra salamandra
title_short Species detection from aquatic eDNA: assessing the importance of capture methods
title_full Species detection from aquatic eDNA: assessing the importance of capture methods
title_fullStr Species detection from aquatic eDNA: assessing the importance of capture methods
title_full_unstemmed Species detection from aquatic eDNA: assessing the importance of capture methods
title_sort Species detection from aquatic eDNA: assessing the importance of capture methods
author Peixoto, Sara
author_facet Peixoto, Sara
Chaves, Cátia
Velo-Antón, Guillermo
Beja, Pedro
Egeter, Bastian
author_role author
author2 Chaves, Cátia
Velo-Antón, Guillermo
Beja, Pedro
Egeter, Bastian
author2_role author
author
author
author
dc.contributor.none.fl_str_mv Repositório da Universidade de Lisboa
dc.contributor.author.fl_str_mv Peixoto, Sara
Chaves, Cátia
Velo-Antón, Guillermo
Beja, Pedro
Egeter, Bastian
dc.subject.por.fl_str_mv amphibians,
capture methods
environmental DNA
PCR replication thresholds
Salamandra salamandra
topic amphibians,
capture methods
environmental DNA
PCR replication thresholds
Salamandra salamandra
description Original Research
publishDate 2021
dc.date.none.fl_str_mv 2021-06-02T13:38:14Z
2021
2021-01-01T00:00:00Z
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/10400.5/21417
url http://hdl.handle.net/10400.5/21417
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv Environmental DNA. 2021;3:435–448
10.1002/edn3.130
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 Wiley
publisher.none.fl_str_mv Wiley
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron:RCAAP
instname_str Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron_str RCAAP
institution RCAAP
reponame_str Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
collection Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
repository.name.fl_str_mv Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
repository.mail.fl_str_mv
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