[HTML][HTML] DNA barcode reference libraries for the monitoring of aquatic biota in Europe: Gap-analysis and recommendations for future work

H Weigand, AJ Beermann, F Čiampor, FO Costa… - Science of the Total …, 2019 - Elsevier
Effective identification of species using short DNA fragments (DNA barcoding and DNA
metabarcoding) requires reliable sequence reference libraries of known taxa. Both …

Lake sedimentary DNA research on past terrestrial and aquatic biodiversity: Overview and recommendations

E Capo, C Giguet-Covex, A Rouillard, K Nota… - Quaternary, 2021 - mdpi.com
The use of lake sedimentary DNA to track the long-term changes in both terrestrial and
aquatic biota is a rapidly advancing field in paleoecological research. Although largely …

Counting with DNA in metabarcoding studies: How should we convert sequence reads to dietary data?

BE Deagle, AC Thomas, JC McInnes… - Molecular …, 2019 - Wiley Online Library
Advances in DNA sequencing technology have revolutionized the field of molecular analysis
of trophic interactions, and it is now possible to recover counts of food DNA sequences from …

[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 …

[HTML][HTML] Expanding ecological assessment by integrating microorganisms into routine freshwater biomonitoring

M Sagova-Mareckova, J Boenigk, A Bouchez… - Water research, 2021 - Elsevier
Bioindication has become an indispensable part of water quality monitoring in most
countries of the world, with the presence and abundance of bioindicator taxa, mostly …

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 …

Promises and pitfalls of using high‐throughput sequencing for diet analysis

A Alberdi, O Aizpurua, K Bohmann… - Molecular ecology …, 2019 - Wiley Online Library
The application of high‐throughput sequencing‐based approaches to DNA extracted from
environmental samples such as gut contents and faeces has become a popular tool for …

Beyond biodiversity: Can environmental DNA (eDNA) cut it as a population genetics tool?

CIM Adams, M Knapp, NJ Gemmell, GJ Jeunen… - Genes, 2019 - mdpi.com
Population genetic data underpin many studies of behavioral, ecological, and evolutionary
processes in wild populations and contribute to effective conservation management …

Diat. barcode, an open-access curated barcode library for diatoms

F Rimet, E Gusev, M Kahlert, MG Kelly… - Scientific Reports, 2019 - nature.com
Diatoms (Bacillariophyta) are ubiquitous microalgae which produce a siliceous exoskeleton
and which make a major contribution to the productivity of oceans and freshwaters. They …

[PDF][PDF]  Towards quantitative metabarcoding of eukaryotic plankton: an approach to improve 18S rRNA gene copy number bias

JL Martin, I Santi, P Pitta, U John… - Metabarcoding and …, 2022 - mbmg.pensoft.net
Plankton metabarcoding is increasingly implemented in marine ecosystem assessments
and is more cost-efficient and less time-consuming than monitoring based on microscopy …