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dc.contributor.authorEsnaola Illarreta, Amaiur
dc.contributor.authorArrizabalaga Escudero, Aitor
dc.contributor.authorGonzález Esteban, Jorge
dc.contributor.authorElosegi Irurtia, Arturo
dc.contributor.authorAiartza Azurtza, José Ramón
dc.date.accessioned2019-01-14T13:02:17Z
dc.date.available2019-01-14T13:02:17Z
dc.date.issued2018-12-14
dc.identifier.citationPLOS ONE 13(12) : (2018) // Article ID e0208986es_ES
dc.identifier.issn1932-6203
dc.identifier.urihttp://hdl.handle.net/10810/30796
dc.description.abstractMolecular techniques allow non-invasive dietary studies from faeces, providing an invaluable tool to unveil ecological requirements of endangered or elusive species. They contribute to progress on important issues such as genomics, population genetics, dietary studies or reproductive analyses, essential knowledge for conservation biology. Nevertheless, these techniques require general methods to be tailored to the specific research objectives, as well as to substrate- and species-specific constraints. In this pilot study we test a range of available primers to optimise diet analysis from metabarcoding of faeces of a generalist aquatic insectivore, the endangered Pyrenean desman (Galemys pyrenaicus, E. Geoffroy Saint-Hilaire, 1811, Talpidae), as a step to improve the knowledge of the conservation biology of this species. Twenty-four faeces were collected in the field, DNA was extracted from them, and fragments of the standard barcode region (COI) were PCR amplified by using five primer sets (Brandon-Mong, Gillet, Leray, Meusnier and Zeale). PCR outputs were sequenced on the Illumina MiSeq platform, sequences were processed, clustered into OTUs (Operational Taxonomic Units) using UPARSE algorithm and BLASTed against the NCBI database. Although all primer sets successfully amplified their target fragments, they differed considerably in the amounts of sequence reads, rough OTUs, and taxonomically assigned OTUs. Primer sets consistently identified a few abundant prey taxa, probably representing the staple food of the Pyrenean desman. However, they differed in the less common prey groups. Overall, the combination of Gillet and Zeale primer sets were most cost-effective to identify the widest taxonomic range of prey as well as the desman itself, which could be further improved stepwise by adding sequentially the outputs of Leray, Brandon-Mong and Meusnier primers. These results are relevant for the conservation biology of this endangered species as they allow a better characterization of its food and habitat requirements.es_ES
dc.description.sponsorshipThe study was funded by the EU project LIFE IREKIBAI (LIFE14 NAT/ES/000186), as well as by the Provincial Council of Gipuzkoa, City Council of San Sebastian, Basque Government (156P/2016 and IT754-13) and the University of the Basque Country UPV/EHU. The Basque Government granted AEs (PRE_2015_1_0408). DESMA Estudios Ambientales provided support in the form of salaries for author JGE, but did not have any additional role in the study design, data collection and analysis, decision to publish, or preparation of the manuscript. The specific roles of these authors are articulated in the 'author contributions' section.es_ES
dc.language.isoenges_ES
dc.publisherPublic Library Sciencees_ES
dc.rightsinfo:eu-repo/semantics/openAccesses_ES
dc.rights.urihttp://creativecommons.org/licenses/by/3.0/es/*
dc.subjecttrophic interactionses_ES
dc.subjectpreyes_ES
dc.subjectpredatores_ES
dc.subjectecologyes_ES
dc.subjectbiologyes_ES
dc.subjectPCRes_ES
dc.subjectDNAes_ES
dc.titleDetermining diet from faeces: Selection of metabarcoding primers for the insectivore Pyrenean desman ( Galemys pyrenaicus )es_ES
dc.typeinfo:eu-repo/semantics/articlees_ES
dc.rights.holder2018 Esnaola et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.es_ES
dc.rights.holderAtribución 3.0 España*
dc.relation.publisherversionhttps://journals.plos.org/plosone/article?id=10.1371/journal.pone.0208986es_ES
dc.identifier.doi10.1371/journal.pone.0208986
dc.departamentoesBiología vegetal y ecologíaes_ES
dc.departamentoesZoología y biología celular animales_ES
dc.departamentoeuLandaren biologia eta ekologiaes_ES
dc.departamentoeuZoologia eta animalia zelulen biologiaes_ES


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2018 Esnaola et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Except where otherwise noted, this item's license is described as 2018 Esnaola et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.