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The future of biotic indices in the ecogenomic era: Integrating (e)DNA metabarcoding in biological assessment of aquatic ecosystems

2018Journal article Restricted access
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dc.contributor.authorPawlowski, Jan
dc.contributor.authorKelly-Quinn, Mary
dc.contributor.authorAltermatt, Florian
dc.contributor.authorApothéloz-Perret-Gentil, Laure
dc.contributor.authorBeja, Pedro
dc.contributor.authorBoggero, Angela
dc.contributor.authorBorja, Angel
dc.contributor.authorBouchez, Agnès
dc.contributor.authorCordier, Tristan
dc.contributor.authorDomaizon, Isabelle
dc.contributor.authorFeio, Maria Joao
dc.contributor.authorFilipe, Ana Filipa
dc.contributor.authorFornaroli, Riccardo
dc.contributor.authorGraf, Wolfram
dc.contributor.authorHerder, Jelger
dc.contributor.authorvan der Hoorn, Berry
dc.contributor.authorIwan Jones, J.
dc.contributor.authorSagova-Mareckova, Marketa
dc.contributor.authorMoritz, Christian
dc.contributor.authorBarquín, Jose
dc.contributor.authorPiggott, Jeremy J.
dc.contributor.authorPinna, Maurizio
dc.contributor.authorRimet, Frederic
dc.contributor.authorRinkevich, Buki
dc.contributor.authorSousa-Santos, Carla
dc.contributor.authorSpecchia, Valeria
dc.contributor.authorTrobajo, Rosa
dc.contributor.authorVasselon, Valentin
dc.contributor.authorVitecek, Simon
dc.contributor.authorZimmerman, Jonas
dc.contributor.authorWeigand, Alexander
dc.contributor.authorLeese, Florian
dc.contributor.authorKahlert, Maria
dc.date.accessioned2018-06-21T14:59:46Z
dc.date.available2018-06-21T14:59:46Z
dc.date.issued2018
dc.description.abstractThe bioassessment of aquatic ecosystems is currently based on various biotic indices that use the occurrence and/or abundance of selected taxonomic groups to define ecological status. These conventional indices have some limitations, often related to difficulties in morphological identification of bioindicator taxa. Recent development of DNA barcoding and metabarcoding could potentially alleviate some of these limitations, by using DNA sequences instead of morphology to identify organisms and to characterize a given ecosystem. In this paper, we review the structure of conventional biotic indices, and we present the results of pilot metabarcoding studies using environmental DNA to infer biotic indices. We discuss the main advantages and pitfalls of metabarcoding approaches to assess parameters such as richness, abundance, taxonomic composition and species ecological values, to be used for calculation of biotic indices. We present some future developments to fully exploit the potential of metabarcoding data and improve the accuracy and precision of their analysis. We also propose some recommendations for the future integration of DNA metabarcoding to routine biomonitoring programs.pt_PT
dc.description.sponsorshipFundação para a Ciência e a Tecnologia (FCT); Swiss National Science Foundation; Swedish Agency for Marine and Water Management (SwAM); EDP Biodiversity Chair; ERA Chair in Environmental Metagenomics; German Federal Ministry for Education and Research (BMBF); Italian Ministry of University and Research (MIUR); Interreg-ADRION 2014-2020; Ministry of National Infrastructures, Energy and Water Resources, Israel; French Biodiversity Agency (AFB); Ministry of Education, Youth and Sports of the Czech Republicpt_PT
dc.description.versioninfo:eu-repo/semantics/publishedVersionpt_PT
dc.identifier.citationScience of the Total Environment, 37–638, 1295–1310. Doi: 10.1016/j.scitotenv.2018.05.002pt_PT
dc.identifier.doi10.1016/j.scitotenv.2018.05.002pt_PT
dc.identifier.issn00489697
dc.identifier.urihttp://hdl.handle.net/10400.12/6428
dc.language.isoengpt_PT
dc.peerreviewedyespt_PT
dc.publisherElsevierpt_PT
dc.relation313003A_159709pt_PT
dc.relationPP00P3_150698pt_PT
dc.relation31003A_173074pt_PT
dc.relationCapacity Building at InBIO for Research and Innovation Using Environmental Metagenomics
dc.relation01LI1501Ept_PT
dc.relation01Li1501Kpt_PT
dc.relationCUP C69H18000250007pt_PT
dc.relationLTC17075pt_PT
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/pt_PT
dc.subjectBiomonitoringpt_PT
dc.subjectBioassessmentpt_PT
dc.subjectMarinept_PT
dc.subjectFreshwaterpt_PT
dc.subjectEnvironmental DNApt_PT
dc.subjectMetabarcordingpt_PT
dc.titleThe future of biotic indices in the ecogenomic era: Integrating (e)DNA metabarcoding in biological assessment of aquatic ecosystemspt_PT
dc.typejournal article
dspace.entity.typePublication
oaire.awardTitleCapacity Building at InBIO for Research and Innovation Using Environmental Metagenomics
oaire.awardURIinfo:eu-repo/grantAgreement/EC/H2020/668981/EU
oaire.citation.conferencePlaceNetherlandspt_PT
oaire.citation.endPage1310pt_PT
oaire.citation.startPage1295pt_PT
oaire.citation.titleScience of the Total Environmentpt_PT
oaire.citation.volume637-638pt_PT
oaire.fundingStreamH2020
project.funder.identifierhttp://doi.org/10.13039/501100008530
project.funder.nameEuropean Commission
rcaap.rightsrestrictedAccesspt_PT
rcaap.typearticlept_PT
relation.isProjectOfPublication5fd52444-4991-4fe2-a1bf-3fe6118f839f
relation.isProjectOfPublication.latestForDiscovery5fd52444-4991-4fe2-a1bf-3fe6118f839f

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