[HTML][HTML] Diversity and ecology of protists revealed by metabarcoding

F Burki, MM Sandin, M Jamy - Current Biology, 2021 - cell.com
Protists are the dominant eukaryotes in the biosphere where they play key functional roles.
While protists have been studied for over a century, it is the high-throughput sequencing of …

[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 …

[HTML][HTML] High-resolution metagenomic reconstruction of the freshwater spring bloom

VS Kavagutti, PA Bulzu, CM Chiriac, MM Salcher… - Microbiome, 2023 - Springer
Background The phytoplankton spring bloom in freshwater habitats is a complex, recurring,
and dynamic ecological spectacle that unfolds at multiple biological scales. Although …

Perspectives from ten years of protist studies by high‐throughput metabarcoding

L Santoferrara, F Burki, S Filker… - Journal of Eukaryotic …, 2020 - Wiley Online Library
During the last decade, high‐throughput metabarcoding became routine for analyzing
protistan diversity and distributions in nature. Amid a multitude of exciting findings, scientists …

Current practice in plankton metabarcoding: optimization and error management

LF Santoferrara - Journal of Plankton Research, 2019 - academic.oup.com
High-throughput sequencing of a targeted genetic marker is being widely used to analyze
biodiversity across taxa and environments. Amid a multitude of exciting findings, scientists …

Ecology of planktonic ciliates in a changing world: concepts, methods, and challenges

T Weisse, DJS Montagnes - Journal of Eukaryotic Microbiology, 2022 - Wiley Online Library
Plankton ecologists ultimately focus on forecasting, both applied and environmental
outcomes. We review how appreciating planktonic ciliates has become central to these …

[PDF][PDF] Metabarcoding data allow for reliable biomass estimates in the most abundant animals on earth

J Schenk, S Geisen, N Kleinboelting… - Metabarcoding and …, 2019 - mbmg.pensoft.net
Microscopic organisms are the dominant and most diverse organisms on Earth. Nematodes,
as part of this microscopic diversity, are by far the most abundant animals and their diversity …

[HTML][HTML] CARD-FISH in the sequencing era: opening a new universe of protistan ecology

K Piwosz, I Mukherjee, MM Salcher, V Grujčić… - Frontiers in …, 2021 - frontiersin.org
Phagotrophic protists are key players in aquatic food webs. Although sequencing-based
studies have revealed their enormous diversity, ecological information on in situ abundance …

[HTML][HTML] Paleoreconstructions of ciliate communities reveal long-term ecological changes in temperate lakes

C Barouillet, V Vasselon, F Keck, L Millet, D Etienne… - Scientific Reports, 2022 - nature.com
Ciliates are unicellular heterotrophic organisms that play a key role in aquatic planktonic
and benthic food webs. Advances in sedimentary DNA (sed-DNA) analysis offer the …