Phytool, a ShinyApp to homogenise taxonomy of freshwater microalgae from DNA barcodes and microscopic observations

Alexis Canino; Agnès Bouchez; Christophe Laplace-Treyture; Isabelle Domaizon; Frédéric Rimet

doi:10.3897/mbmg.5.74096

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Metabarcoding and Metagenomics 5: e74096
https://doi.org/10.3897/mbmg.5.74096 (15 Dec 2021)

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Paula Gauvin, Isabelle Domaizon, Agnes Bouchez, Frédéric Rimet (2025)
Environmental Matrices Need Consideration: Insights From Water and Biofilm Environmental DNA for Multi‐Taxonomic Biomonitoring. Environmental DNA 7: .

DOI: 10.1002/edn3.70079

Alexis Canino, Clarisse Lemonnier, Benjamin Alric, Agnès Bouchez, Isabelle Domaizon, Christophe Laplace-Treyture, Frédéric Rimet (2023)
Which barcode to decipher freshwater microalgal assemblages? Tests on mock communities. International Journal of Limnology 59: 8.

DOI: 10.1051/limn/2023008

Kálmán Tapolczai, Frédéric Rimet, Miloš Ćirić, Andreas Ballot, Christophe Laplace-Treyture, Benjamin Alric (2025)
A novel framework for phytoplankton biomonitoring: Trait assignment of 23S rRNA sequences. Ecological Indicators 173: 113361.

DOI: 10.1016/j.ecolind.2025.113361

Hristina Kochoska, Cécile Chardon, Teofana Chonova, François Keck, Lenaïg Kermarrec, Floriane Larras, Estelle Lefrancois, Sinziana F. Rivera, Kálmán Tapolczai, Valentin Vasselon, Zlatko Levkov, Frédéric Rimet (2023)
Filling reference libraries with diatom environmental sequences: strengths and weaknesses. Diatom Research 38: 103.

DOI: 10.1080/0269249X.2023.2237977

Maria Mercedes Nicolosi Gelis, Alexis Canino, Agnès Bouchez, Isabelle Domaizon, Christophe Laplace-Treyture, Frédéric Rimet, Benjamin Alric (2024)
Assessing the relevance of DNA metabarcoding compared to morphological identification for lake phytoplankton monitoring. Science of The Total Environment 914: 169774.

DOI: 10.1016/j.scitotenv.2023.169774

Andrea M. Burfeid-Castellanos, Phillip Mones, Mimoza Dani, Bánk Beszteri (2024)
Non-perennial rivers and streams in extreme hydrological conditions—comparing the effectiveness of amplicon sequencing and digital microscopy for diatom biodiversity appraisal. Frontiers in Ecology and Evolution 12: .

DOI: 10.3389/fevo.2024.1355018

Amy C. Thorpe, Eleanor B. Mackay, Tim Goodall, James A. Bendle, Stephen J. Thackeray, Stephen C. Maberly, Daniel S. Read (2024)
Evaluating the use of lake sedimentary DNA in palaeolimnology: A comparison with long‐term microscopy‐based monitoring of the phytoplankton community. Molecular Ecology Resources 24: .

DOI: 10.1111/1755-0998.13903

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