Spatio-temporal monitoring of deep-sea communities using metabarcoding of sediment DNA and RNA

We assessed spatio-temporal patterns of diversity in deep-sea sediment communities using metabarcoding. We chose a recently developed eukaryotic marker based on the v7 region of the 18S rRNA gene. Our study was performed in a submarine canyon and its adjacent slope in the Northwestern Mediterranean...

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Detalhes bibliográficos
Autores: Guardiola, Magdalena, Wangensteen Fuentes, Owen S. (Simon), Taberlet, Pierre, Coissac, Eric, Uriz, María Jesús, Turon Barrera, Xavier
Tipo de documento: artigo
Estado:Versão publicada
Data de publicação:2016
País:España
Recursos:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
Repositório:Recercat. Dipósit de la Recerca de Catalunya
OAI Identifier:oai:recercat.cat:2445/191523
Acesso em linha:https://hdl.handle.net/2445/191523
Access Level:Acceso aberto
Palavra-chave:Sediments marins
Seguiment biològic
Valls submarines
ADN
RNA
Marine sediments
Biological monitoring
Submarine valleys
DNA
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oai_identifier_str oai:recercat.cat:2445/191523
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repository_id_str
spelling Spatio-temporal monitoring of deep-sea communities using metabarcoding of sediment DNA and RNAGuardiola, MagdalenaWangensteen Fuentes, Owen S. (Simon)Taberlet, PierreCoissac, EricUriz, María JesúsTuron Barrera, XavierSediments marinsSeguiment biològicValls submarinesADNRNAMarine sedimentsBiological monitoringSubmarine valleysDNARNAWe assessed spatio-temporal patterns of diversity in deep-sea sediment communities using metabarcoding. We chose a recently developed eukaryotic marker based on the v7 region of the 18S rRNA gene. Our study was performed in a submarine canyon and its adjacent slope in the Northwestern Mediterranean Sea, sampled along a depth gradient at two different seasons. We found a total of 5,569 molecular operational taxonomic units (MOTUs), dominated by Metazoa, Alveolata and Rhizaria. Among metazoans, Nematoda, Arthropoda and Annelida were the most diverse. We found a marked heterogeneity at all scales, with important differences between layers of sediment and significant changes in community composition with zone (canyon vs slope), depth, and season. We compared the information obtained from metabarcoding DNA and RNA and found more total MOTUs and more MOTUs per sample with DNA (ca. 20% and 40% increase, respectively). Both datasets showed overall similar spatial trends, but most groups had higher MOTU richness with the DNA template, while others, such as nematodes, were more diverse in the RNA dataset. We provide metabarcoding protocols and guidelines for biomonitoring of these key communities in order to generate information applicable to management efforts.PeerJ2022202220162022info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersion31 p.application/pdfhttps://hdl.handle.net/2445/191523Articles publicats en revistes (Biologia Evolutiva, Ecologia i Ciències Ambientals)reponame:Recercat. Dipósit de la Recerca de Catalunyainstname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)InglésReproducció del document publicat a: https://doi.org/10.7717/peerj.2807PeerJ, 2016, vol. 4, p. e2807https://doi.org/10.7717/peerj.2807cc-by (c) Guardiola, Magdalena et al., 2016https://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:recercat.cat:2445/1915232026-05-29T05:05:01Z
dc.title.none.fl_str_mv Spatio-temporal monitoring of deep-sea communities using metabarcoding of sediment DNA and RNA
title Spatio-temporal monitoring of deep-sea communities using metabarcoding of sediment DNA and RNA
spellingShingle Spatio-temporal monitoring of deep-sea communities using metabarcoding of sediment DNA and RNA
Guardiola, Magdalena
Sediments marins
Seguiment biològic
Valls submarines
ADN
RNA
Marine sediments
Biological monitoring
Submarine valleys
DNA
RNA
title_short Spatio-temporal monitoring of deep-sea communities using metabarcoding of sediment DNA and RNA
title_full Spatio-temporal monitoring of deep-sea communities using metabarcoding of sediment DNA and RNA
title_fullStr Spatio-temporal monitoring of deep-sea communities using metabarcoding of sediment DNA and RNA
title_full_unstemmed Spatio-temporal monitoring of deep-sea communities using metabarcoding of sediment DNA and RNA
title_sort Spatio-temporal monitoring of deep-sea communities using metabarcoding of sediment DNA and RNA
dc.creator.none.fl_str_mv Guardiola, Magdalena
Wangensteen Fuentes, Owen S. (Simon)
Taberlet, Pierre
Coissac, Eric
Uriz, María Jesús
Turon Barrera, Xavier
author Guardiola, Magdalena
author_facet Guardiola, Magdalena
Wangensteen Fuentes, Owen S. (Simon)
Taberlet, Pierre
Coissac, Eric
Uriz, María Jesús
Turon Barrera, Xavier
author_role author
author2 Wangensteen Fuentes, Owen S. (Simon)
Taberlet, Pierre
Coissac, Eric
Uriz, María Jesús
Turon Barrera, Xavier
author2_role author
author
author
author
author
dc.subject.none.fl_str_mv Sediments marins
Seguiment biològic
Valls submarines
ADN
RNA
Marine sediments
Biological monitoring
Submarine valleys
DNA
RNA
topic Sediments marins
Seguiment biològic
Valls submarines
ADN
RNA
Marine sediments
Biological monitoring
Submarine valleys
DNA
RNA
description We assessed spatio-temporal patterns of diversity in deep-sea sediment communities using metabarcoding. We chose a recently developed eukaryotic marker based on the v7 region of the 18S rRNA gene. Our study was performed in a submarine canyon and its adjacent slope in the Northwestern Mediterranean Sea, sampled along a depth gradient at two different seasons. We found a total of 5,569 molecular operational taxonomic units (MOTUs), dominated by Metazoa, Alveolata and Rhizaria. Among metazoans, Nematoda, Arthropoda and Annelida were the most diverse. We found a marked heterogeneity at all scales, with important differences between layers of sediment and significant changes in community composition with zone (canyon vs slope), depth, and season. We compared the information obtained from metabarcoding DNA and RNA and found more total MOTUs and more MOTUs per sample with DNA (ca. 20% and 40% increase, respectively). Both datasets showed overall similar spatial trends, but most groups had higher MOTU richness with the DNA template, while others, such as nematodes, were more diverse in the RNA dataset. We provide metabarcoding protocols and guidelines for biomonitoring of these key communities in order to generate information applicable to management efforts.
publishDate 2016
dc.date.none.fl_str_mv 2016
2022
2022
2022
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv https://hdl.handle.net/2445/191523
url https://hdl.handle.net/2445/191523
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Reproducció del document publicat a: https://doi.org/10.7717/peerj.2807
PeerJ, 2016, vol. 4, p. e2807
https://doi.org/10.7717/peerj.2807
dc.rights.none.fl_str_mv cc-by (c) Guardiola, Magdalena et al., 2016
https://creativecommons.org/licenses/by/4.0/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv cc-by (c) Guardiola, Magdalena et al., 2016
https://creativecommons.org/licenses/by/4.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 31 p.
application/pdf
dc.publisher.none.fl_str_mv PeerJ
publisher.none.fl_str_mv PeerJ
dc.source.none.fl_str_mv Articles publicats en revistes (Biologia Evolutiva, Ecologia i Ciències Ambientals)
reponame:Recercat. Dipósit de la Recerca de Catalunya
instname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
instname_str Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
reponame_str Recercat. Dipósit de la Recerca de Catalunya
collection Recercat. Dipósit de la Recerca de Catalunya
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15,198674

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