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List of works by Frédéric Rimet

A large-scale stream benthic diatom database

A taxonomy-free approach based on machine learning to assess the quality of rivers with diatoms

scientific article published on 12 March 2020

A trait database for Phytoplankton of temperate lakes

scientific article published on 27 April 2018

Application of high-throughput sequencing (HTS) metabarcoding to diatom biomonitoring: Do DNA extraction methods matter?

scientific article published in March 2017

Assessing ecological status with diatoms DNA metabarcoding: Scaling-up on a WFD monitoring network (Mayotte island, France)

scientific article published in November 2017

Avoiding quantification bias in metabarcoding: Application of a cell biovolume correction factor in diatom molecular biomonitoring

scientific article published on 22 January 2018

BRC4Env, a network of Biological Resource Centres for research in environmental and agricultural sciences

scientific article published on 19 April 2018

Benthic Diatom Communities in an Alpine River Impacted by Waste Water Treatment Effluents as Revealed Using DNA Metabarcoding

scientific article published on 09 April 2019

Blue-Green Algae in a “Greenhouse Century”? New Insights from Field Data on Climate Change Impacts on Cyanobacteria Abundance

scholarly article by Orlane Anneville et al published 15 January 2015 in Ecosystems

Boosting DNA metabarcoding for biomonitoring with phylogenetic estimation of operational taxonomic units’ ecological profiles

scientific article published on 13 July 2018

Can we predict diatoms herbicide sensitivities with phylogeny? Influence of intraspecific and interspecific variability.

scientific article

Changes in diatom-dominated biofilms during simulated improvements in water quality: implications for diatom-based monitoring in rivers

Connecting the morphological and molecular species concepts to facilitate species identification within the genus Fragilaria (Bacillariophyta)

scientific article published on 28 June 2019

Cyprus’ diatom diversity and the association of environmental and anthropogenic influences for ecological assessment of rivers using DNA metabarcoding

scientific article published in 2021

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

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

scientific article published on 27 April 2019

DNA metabarcoding and microscopic analyses of sea turtles biofilms: Complementary to understand turtle behavior.

scientific article

DNA metabarcoding reveals differences in distribution patterns and ecological preferences among genetic variants within some key freshwater diatom species

DNAqua-Net: Developing new genetic tools for bioassessment and monitoring of aquatic ecosystems in Europe

scientific article (publication date: 29 November 2016)

Development and implementation of eco-genomic tools for aquatic ecosystem biomonitoring: the SYNAQUA French-Swiss program

scientific article published on 07 May 2018

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

scientific article published on 22 October 2019

Diatom Communities and Water Quality Assessment in Mountain Rivers of the Upper Segre Basin (La Cerdanya, Oriental Pyrenees)

Diatom DNA Metabarcoding for Biomonitoring: Strategies to Avoid Major Taxonomical and Bioinformatical Biases Limiting Molecular Indices Capacities

article by Kálmán Tapolczai et al published 29 October 2019 in Frontiers in Ecology and Evolution

Diatom metabarcoding applied to large scale monitoring networks: Optimization of bioinformatics strategies using Mothur software

scientific article published in February 2020

Do we similarly assess diversity with microscopy and high-throughput sequencing? Case of microalgae in lakes

scientific article published on 2 February 2018

Effects of atrazine and nicosulfuron on phytoplankton in systems of increasing complexity.

scientific article

Environmental filtering and limiting similarity as main forces driving diatom community structure in Mediterranean and continental temporary and perennial streams

scientific article published on 23 June 2020

Evaluation and sensitivity analysis of diatom DNA metabarcoding for WFD bioassessment of Mediterranean rivers

scientific article published on 04 April 2020

First evidence of the existence of semi-cryptic species and of a phylogeographic structure in the Gomphonema parvulum (Kützing) Kützing complex (Bacillariophyta).

scientific article published on 28 August 2013

Freshwater biomonitoring in the Information Age

scientific article published on 15 May 2017

High-resolution paleolimnology opens new management perspectives for lakes adaptation to climate warming

article

In situ assessment of periphyton recovery in a river contaminated by pesticides

scientific article

Influence of Herbicide Contamination on Diversity and Ecological Guilds of River Diatoms

scientific article published in May 2013

Linking diatom sensitivity to herbicides to phylogeny: a step forward for biomonitoring?

scientific article published on 21 January 2014

Metadata standards and practical guidelines for specimen and DNA curation when building barcode reference libraries for aquatic life

scientific article published in 2021

Modelling the plankton groups of the deep, peri-alpine Lake Bourget

scientific article

Monitoring the ecological status of rivers with diatom eDNA metabarcoding: a comparison of taxonomic markers and analytical approaches for the inference of a molecular diatom index

scientific article published on 26 September 2020

Morphology and phylogeny of Nitzschia nandorii sp. nov. (Bacillariophyceae), a new small-celled lanceolate species from a post-mining reservoir

scientific article published in 2024

Occurrence and mass development of Mougeotia spp. (Zygnemataceae) in large, deep lakes

scientific article published on 30 October 2014

Phylogenetic signal in diatom ecology: perspectives for aquatic ecosystems biomonitoring

scientific article published on April 2016

Pioneer marine biofilms on artificial surfaces including antifouling coatings immersed in two contrasting French Mediterranean coast sites.

scientific article published in January 2012

Pollution-induced community tolerance (PICT) as a tool for monitoring Lake Geneva long-term in situ ecotoxic restoration from herbicide contamination

scientific article published on 3 September 2015

R-Syst::diatom: an open-access and curated barcode database for diatoms and freshwater monitoring

scientific article published on 17 March 2016

Response of diatom indices to simulated water quality improvements in a river

article

Ripe for reassessment: a synthesis of available molecular data for the speciose diatom family Bacillariaceae

scientific article published on 12 October 2020

Risk of herbicide mixtures as a key parameter to explain phytoplankton fluctuation in a great lake: the case of Lake Geneva, Switzerland.

scientific article

Seasonal shift in the sensitivity of a natural benthic microalgal community to a herbicide mixture: impact on the protective level of thresholds derived from species sensitivity distributions

scientific article

Separate treatment of hospital and urban wastewaters: A real scale comparison of effluents and their effect on microbial communities

scientific article published on 9 November 2015

Species sensitivity analysis as a tool for interpreting diatom metabarcoding for WFD bioassessment

scientific article published in 2021

Taxonomy- or trait-based ecological assessment for tropical rivers? Case study on benthic diatoms in Mayotte island (France, Indian Ocean).

scientific article

The effect of temperature and a herbicide mixture on freshwater periphytic algae

scientific article published on 9 October 2013

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

scientific article published in October 2018

The impact of OTU sequence similarity threshold on diatom-based bioassessment: A case study of the rivers of Mayotte (France, Indian Ocean)

article

The paradox of re‐oligotrophication: the role of bottom–up versus top–down controls on the phytoplankton community

scholarly article

The potential of High-Throughput Sequencing (HTS) of natural samples as a source of primary taxonomic information for reference libraries of diatom barcodes

scientific article published on 31 March 2018

The potential of exact sequence variants (ESVs) to interpret and assess the impact of agricultural pressure on stream diatom assemblages revealed by DNA metabarcoding

article by Kálmán Tapolczai et al published March 2021 in Ecological Indicators

Transplantation of microbenthic algal assemblages to assess structural and functional recovery after diuron exposure

scientific article published on 01 November 2010

Trophic history of French sub-alpine lakes over the last ~150 years: phosphorus reconstruction and assessment of taphonomic biases

article

Using bioassays and species sensitivity distributions to assess herbicide toxicity towards benthic diatoms

scientific article

Water quality assessment using diatom assemblages and advanced modelling techniques

When is sampling complete? The effects of geographical range and marker choice on perceived diversity in Nitzschia palea (Bacillariophyta).

scientific article

eDNAqua-Plan—Standardisation Overview for eDNA Sequencing of Aquatic Organisms and the Downstream Data Ecosystem

scientific article published in 2024

phylosignal: an R package to measure, test, and explore the phylogenetic signal

scientific article published on 19 March 2016

A strategy for successful integration of DNA-based methods in aquatic monitoring

scientific article published in 2022

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