Laure Apothéloz-Perret-Gentil

TL;DR: 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 are discussed.

TL;DR: This proof-of-concept study demonstrates the potential of the NGS approach for identification and quantification of diatoms in environmental samples, opening new avenues toward the routine application of genetic tools for bioassessment and biomonitoring of aquatic ecosystems.

TL;DR: This paper aims to compare, review and discuss the strengths and limitations of four general implementation strategies of environmental genomics for monitoring, and proposes a roadmap for the implementation of environmentalgenomics into routine monitoring programmes that leverage recent analytical advancements.

TL;DR: This work investigates the possibility to overcome limitations using a taxonomy‐free approach that allows the computing of a molecular index directly from eDNA data without any reference to morphotaxonomy, using the benthic diatoms index, commonly used for monitoring the biological quality of rivers and streams.

TL;DR: Reviewing studies that examine the ecological applications of metabarcoding for two groups of well-known protist bioindicators: diatoms and foraminifera shows that despite some biological and technical biases, molecular data quite faithfully reflect the morphology-based biotic indices and provide a similar assessment of ecosystem status.