| 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, L Apothéloz-Perret-Gentil, P Beja, ... Science of the Total Environment 637, 1295-1310, 2018 | 503 | 2018 |
| Ecosystems monitoring powered by environmental genomics: a review of current strategies with an implementation roadmap T Cordier, L Alonso‐Sáez, L Apothéloz‐Perret‐Gentil, E Aylagas, ... Molecular Ecology 30 (13), 2937-2958, 2021 | 228 | 2021 |
| Environmental monitoring: inferring the diatom index from next-generation sequencing data JA Visco, L Apothéloz-Perret-Gentil, A Cordonier, P Esling, L Pillet, ... Environmental science & technology 49 (13), 7597-7605, 2015 | 217 | 2015 |
| Environmental DNA: What's behind the term? Clarifying the terminology and recommendations for its future use in biomonitoring J Pawlowski, L Apothéloz‐Perret‐Gentil, F Altermatt Molecular Ecology 29 (22), 4258-4264, 2020 | 212 | 2020 |
| Taxonomy‐free molecular diatom index for high‐throughput eDNA biomonitoring L Apothéloz‐Perret‐Gentil, A Cordonier, F Straub, J Iseli, P Esling, ... Molecular ecology resources 17 (6), 1231-1242, 2017 | 187 | 2017 |
| Protist metabarcoding and environmental biomonitoring: time for change J Pawlowski, F Lejzerowicz, L Apotheloz-Perret-Gentil, J Visco, P Esling European Journal of Protistology 55, 12-25, 2016 | 175 | 2016 |
| Embracing environmental genomics and machine learning for routine biomonitoring T Cordier, A Lanzén, L Apothéloz-Perret-Gentil, T Stoeck, J Pawlowski Trends in microbiology 27 (5), 387-397, 2019 | 173 | 2019 |
| Environmental DNA metabarcoding for benthic monitoring: A review of sediment sampling and DNA extraction methods J Pawlowski, K Bruce, K Panksep, FI Aguirre, S Amalfitano, ... Science of the Total Environment 818, 151783, 2022 | 125 | 2022 |
| SLIM: a flexible web application for the reproducible processing of environmental DNA metabarcoding data Y Dufresne, F Lejzerowicz, LA Perret-Gentil, J Pawlowski, T Cordier BMC bioinformatics 20, 1-6, 2019 | 78 | 2019 |
| Diatom DNA metabarcoding for ecological assessment: Comparison among bioinformatics pipelines used in six European countries reveals the need for standardization B Bailet, L Apothéloz-Perret-Gentil, A Baričević, T Chonova, A Franc, ... Science of the Total Environment 745, 140948, 2020 | 76 | 2020 |
| Multi-marker eDNA metabarcoding survey to assess the environmental impact of three offshore gas platforms in the North Adriatic Sea (Italy) T Cordier, F Frontalini, K Cermakova, L Apothéloz-Perret-Gentil, M Treglia, ... Marine environmental research 146, 24-34, 2019 | 76 | 2019 |
| Benthic foraminiferal metabarcoding and morphology-based assessment around three offshore gas platforms: Congruence and complementarity F Frontalini, T Cordier, E Balassi, EA Du Châtelet, K Cermakova, ... Environment international 144, 106049, 2020 | 69 | 2020 |
| 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 L Apothéloz‐Perret‐Gentil, A Bouchez, T Cordier, A Cordonier, ... Molecular Ecology 30 (13), 2959-2968, 2021 | 66 | 2021 |
| Environmental DNA applications for biomonitoring and bioassessment in aquatic ecosystems J Pawlowski, L Apothéloz-Perret-Gentil, E Mächler, F Altermatt Environmental Studies, 2020 | 50 | 2020 |
| Benthic monitoring of oil and gas offshore platforms in the North Sea using environmental DNA metabarcoding F Mauffrey, T Cordier, L Apothéloz‐Perret‐Gentil, K Cermakova, T Merzi, ... Molecular Ecology 30 (13), 3007-3022, 2021 | 44 | 2021 |
| Eukaryotic biodiversity and spatial patterns in the Clarion-Clipperton Zone and other abyssal regions: Insights from sediment DNA and RNA metabarcoding F Lejzerowicz, AJ Gooday, I Barrenechea Angeles, T Cordier, R Morard, ... Frontiers in Marine Science 8, 671033, 2021 | 41 | 2021 |
| Taxonomic revision of freshwater foraminifera with the description of two new agglutinated species and genera F Siemensma, L Apothéloz-Perret-Gentil, M Holzmann, S Clauss, ... European Journal of Protistology 60, 28-44, 2017 | 29 | 2017 |
| Development and implementation of eco-genomic tools for aquatic ecosystem biomonitoring: the SYNAQUA French-Swiss program E Lefrançois, L Apothéloz-Perret-Gentil, P Blancher, S Botreau, ... Environmental Science and Pollution Research 25 (34), 33858-33866, 2018 | 25 | 2018 |
| Molecular evidence for Lessepsian invasion of Soritids (larger symbiont bearing benthic foraminifera) G Merkado, M Holzmann, L Apothéloz-Perret-Gentil, J Pawlowski, U Abdu, ... PLoS One 8 (10), e77725, 2013 | 25 | 2013 |
| Testing different (e) DNA metabarcoding approaches to assess aquatic oligochaete diversity and the biological quality of sediments R Vivien, L Apothéloz-Perret-Gentil, J Pawlowski, I Werner, BJD Ferrari Ecological Indicators 106, 105453, 2019 | 20 | 2019 |
