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

J Pawlowski, M Kelly-Quinn, F Altermatt… - Science of the Total …, 2018 - Elsevier
The 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 …

Implementation options for DNA-based identification into ecological status assessment under the European Water Framework Directive

D Hering, A Borja, JI Jones, D Pont, P Boets… - Water research, 2018 - Elsevier
Assessment of ecological status for the European Water Framework Directive (WFD) is
based on “Biological Quality Elements”(BQEs), namely phytoplankton, benthic flora, benthic …

Meta‐analysis shows both congruence and complementarity of DNA and eDNA metabarcoding to traditional methods for biological community assessment

F Keck, RC Blackman, R Bossart… - Molecular …, 2022 - Wiley Online Library
DNA metabarcoding is increasingly used for the assessment of aquatic communities, and
numerous studies have investigated the consistency of this technique with traditional …

Navigating the seven challenges of taxonomic reference databases in metabarcoding analyses

F Keck, M Couton, F Altermatt - Molecular Ecology Resources, 2023 - Wiley Online Library
Assessment of biodiversity using metabarcoding data, such as from bulk or environmental
DNA sampling, is becoming increasingly relevant in ecology, biodiversity sciences and …

[BUKU][B] A practical guide to DNA-based methods for biodiversity assessment.

K Bruce, RC Blackman, SJ Bourlat, M Hellström… - 2021 - repository.oceanbestpractices.org
This book represents a synthesis of knowledge and best practice in the field of DNA-based
biomonitoring at the time of writing. It has been written with end-users of molecular tools in …

Non‐specific amplification compromises environmental DNA metabarcoding with COI

RA Collins, J Bakker, OS Wangensteen… - Methods in Ecology …, 2019 - Wiley Online Library
Metabarcoding extra‐organismal DNA from environmental samples is now a key technique
in aquatic biomonitoring and ecosystem health assessment. Of critical consideration when …

[HTML][HTML] Towards a multisensor station for automated biodiversity monitoring

JW Wägele, P Bodesheim, SJ Bourlat, J Denzler… - Basic and Applied …, 2022 - Elsevier
Rapid changes of the biosphere observed in recent years are caused by both small and
large scale drivers, like shifts in temperature, transformations in land-use, or changes in the …

An assessment of minimum sequence copy thresholds for identifying and reducing the prevalence of artefacts in dietary metabarcoding data

LE Drake, JP Cuff, RE Young… - Methods in Ecology …, 2022 - Wiley Online Library
Metabarcoding provides a powerful tool for investigating biodiversity and trophic
interactions, but the high sensitivity of this methodology makes it vulnerable to errors …

Ecosystems monitoring powered by environmental genomics: a review of current strategies with an implementation roadmap

T Cordier, L Alonso‐Sáez… - Molecular …, 2021 - Wiley Online Library
A decade after environmental scientists integrated high‐throughput sequencing
technologies in their toolbox, the genomics‐based monitoring of anthropogenic impacts on …

Environmental DNA (eDNA) metabarcoding reveals strong discrimination among diverse marine habitats connected by water movement

GJ Jeunen, M Knapp, HG Spencer… - Molecular Ecology …, 2019 - Wiley Online Library
While in recent years environmental DNA (eDNA) metabarcoding surveys have shown great
promise as an alternative monitoring method, the integration into existing marine monitoring …