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dc.contributor.authorCordier, Tristan
dc.contributor.authorAlonso Sáez, Laura
dc.contributor.authorApothéloz-Perret-Gentil, Laure
dc.contributor.authorAylagas, Eva
dc.contributor.authorBohan, David A.
dc.contributor.authorBouchez, Agnès
dc.contributor.authorChariton, Anthony
dc.contributor.authorCreer, Simon
dc.contributor.authorFrühe, Larissa
dc.contributor.authorKeck, François
dc.contributor.authorKeeley, Nigel B.
dc.contributor.authorLaroche, Olivier
dc.contributor.authorLeese, Florian
dc.contributor.authorPochon, Xavier
dc.contributor.authorStoeck, Thorsten
dc.contributor.authorPawlowski, Jan
dc.contributor.authorLanzén, Anders
dc.date.accessioned2022-03-02T11:50:52Z
dc.date.available2022-03-02T11:50:52Z
dc.date.created2022-02-09T16:31:38Z
dc.date.issued2021
dc.identifier.citationMolecular Ecology. 2021, 30 (13), 2937-2958.en_US
dc.identifier.issn0962-1083
dc.identifier.urihttps://hdl.handle.net/11250/2982449
dc.description.abstractA decade after environmental scientists integrated high-throughput sequencing technologies in their toolbox, the genomics-based monitoring of anthropogenic impacts on the biodiversity and functioning of ecosystems is yet to be implemented by regulatory frameworks. Despite the broadly acknowledged potential of environmental genomics to this end, technical limitations and conceptual issues still stand in the way of its broad application by end-users. In addition, the multiplicity of potential implementation strategies may contribute to a perception that the routine application of this methodology is premature or “in development”, hence restraining regulators from binding these tools into legal frameworks. Here, we review recent implementations of environmental genomics-based methods, applied to the biomonitoring of ecosystems. By taking a general overview, without narrowing our perspective to particular habitats or groups of organisms, this paper aims to compare, review and discuss the strengths and limitations of four general implementation strategies of environmental genomics for monitoring: (a) Taxonomy-based analyses focused on identification of known bioindicators or described taxa; (b) De novo bioindicator analyses; (c) Structural community metrics including inferred ecological networks; and (d) Functional community metrics (metagenomics or metatranscriptomics). We emphasise the utility of the three latter strategies to integrate meiofauna and microorganisms that are not traditionally utilised in biomonitoring because of difficult taxonomic identification. Finally, we propose a roadmap for the implementation of environmental genomics into routine monitoring programmes that leverage recent analytical advancements, while pointing out current limitations and future research needs.en_US
dc.language.isoengen_US
dc.titleEcosystems monitoring powered by environmental genomics: a review of current strategies with an implementation roadmapen_US
dc.typePeer revieweden_US
dc.typeJournal articleen_US
dc.description.versionpublishedVersionen_US
dc.source.pagenumber2937-2958en_US
dc.source.volume30en_US
dc.source.journalMolecular Ecologyen_US
dc.source.issue13en_US
dc.identifier.doi10.1111/mec.15472
dc.identifier.cristin1999664
cristin.ispublishedtrue
cristin.fulltextoriginal
cristin.qualitycode2


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