Do we similarly assess diversity with microscopy and high-throughput sequencing? Case of microalgae in lakes
Frédéric Rimet
,
Valentin Vasselon
,
Barbara A.-Keszte
,
Agnes Bouchez
Article dans une revue
hal-02625205v1
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Barcoding et bioindication : développement du metabarcoding des diatomées pour l'évaluation de la qualité des cours d'eau
Valentin Vasselon
Biodiversité et Ecologie. Université Grenoble Alpes, 2017. Français.
⟨NNT : ⟩
Thèse
tel-01815806v1
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Exploring the capacity of aquatic biofilms to act as environmental DNA samplers: Test on macroinvertebrate communities in rivers
Sinziana Rivera
,
Valentin Vasselon
,
Nathalie Mary
,
Olivier Monnier
,
Fréderic Rimet
,
et al.
Article dans une revue
hal-03103971v1
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Application of high-throughput sequencing (HTS) metabarcoding to diatom biomonitoring: Do DNA extraction methods matter?
Valentin Vasselon
,
Isabelle Domaizon
,
Frédéric Rimet
,
Maria Kahlert
,
Agnes Bouchez
Article dans une revue
hal-01606868v1
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Changes in Ciliate Communities Reveal Modification of Lake Functioning Over the Last Century
Barouillet Cécilia
,
Valentin Vasselon
,
François Keck
,
Laurent Millet
,
David Etienne
,
et al.
2021
Pré-publication, Document de travail
hal-03474889v1
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Filling reference libraries with diatom environmental sequences: strengths and weaknesses
Hristina Kochoska
,
Cécile Chardon
,
Teofana Chonova
,
François Keck
,
Lenaïg Kermarrec
,
et al.
Article dans une revue
hal-04250763v1
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Avoiding quantification bias in metabarcoding: Application of a cell biovolume correction factor in diatom molecular biomonitoring
Valentin Vasselon
,
Agnes Bouchez
,
Frédéric Rimet
,
Stéphan Jacquet
,
Rosa Trobajo
,
et al.
Article dans une revue
hal-02916343v1
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The potential of High-Throughput Sequencing (HTS) of natural samples as a source of primary taxonomic information for reference libraries of diatom barcodes
Frédéric Rimet
,
Nelida Abarca
,
Agnes Bouchez
,
Wolf-Henning Kusber
,
Regine Jahn
,
et al.
Article dans une revue
hal-02624468v1
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Diatom DNA metabarcoding for ecological assessment: Comparison among bioinformatics pipelines used in six European countries reveals the need for standardization
Bonnie Bailet
,
Laure Apothéloz-Perret-Gentil
,
Ana Baričević
,
Teofana Chonova
,
Alain Franc
,
et al.
Article dans une revue
hal-03152486v1
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Diatom metabarcoding applied to large scale monitoring networks: Optimization of bioinformatics strategies using Mothur software
Sinziana Rivera
,
Valentin Vasselon
,
Agnes Bouchez
,
Frédéric Rimet
Article dans une revue
hal-02518194v1
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Evaluation and sensitivity analysis of diatom DNA metabarcoding for WFD bioassessment of Mediterranean rivers
Javier Pérez-Burillo
,
Rosa Trobajo
,
Valentin Vasselon
,
Frédéric Rimet
,
Agnes Bouchez
,
et al.
Article dans une revue
hal-02557859v1
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A taxonomy-free approach based on machine learning to assess the quality of rivers with diatoms
Maria João Feio
,
Sonia R.Q. Serra
,
Andreia Mortágua
,
Agnes Bouchez
,
Frédéric Rimet
,
et al.
Article dans une revue
hal-02520169v1
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R-Syst::diatom: an open-access and curated barcode database for diatoms and freshwater monitoring
Frédéric Rimet
,
Philippe Chaumeil
,
François Keck
,
Lenaïg Kermarrec
,
Valentin Vasselon
,
et al.
Article dans une revue
hal-01426772v1
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Paleoreconstructions of ciliate communities reveal long-term ecological changes in temperate lakes
Cécilia Barouillet
,
Valentin Vasselon
,
François Keck
,
Laurent Millet
,
David Etienne
,
et al.
Article dans une revue
hal-03667008v1
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Applicability of DNA metabarcoding approach in the bioassessment of Portuguese rivers using diatoms
Andreia Mortágua
,
Valentin Vasselon
,
Ricardo Oliveira
,
Carmen Elias
,
Cécile Chardon
,
et al.
Article dans une revue
hal-02623986v1
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Assessing ecological status with diatoms DNA metabarcoding: Scaling-up on a WFD monitoring network (Mayotte island, France)
Valentin Vasselon
,
Frédéric Rimet
,
Kalman Tapolczai
,
Agnes Bouchez
Article dans une revue
hal-02622658v1
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Metadata standards and practical guidelines for specimen and DNA curation when building barcode reference libraries for aquatic life
Frédéric Rimet
,
Eva Aylagas
,
Ángel Borja
,
Agnes Bouchez
,
Alexis Canino
,
et al.
Article dans une revue
pasteur-03159791v1
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Diatom DNA metabarcoding for biomonitoring: strategies to avoid major taxonomical and bioinformatical biases Llmiting molecular indices capacities
Kálmán Tapolczai
,
François Keck
,
Agnes Bouchez
,
Frédéric Rimet
,
Maria Kahlert
,
et al.
Article dans une revue
hal-02624302v1
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DNA metabarcoding and microscopic analyses of sea turtles biofilms: Complementary to understand turtle behavior
Sinziana Rivera
,
Valentin Vasselon
,
Katia Ballorain
,
Alice Carpentier
,
Carlos E. Wetzel
,
et al.
Article dans une revue
hal-02624564v1
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Boosting DNA metabarcoding for biomonitoring with phylogenetic estimation of OTUs' ecological profiles
F Keck
,
Valentin Vasselon
,
Frédéric Rimet
,
Agnes Bouchez
,
M Kahlert
Article dans une revue
hal-02625977v1
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Metabarcoding of lake benthic diatoms: from structure assemblages to ecological assessment
S. F. Rivera
,
Valentin Vasselon
,
Stéphan Jacquet
,
Agnes Bouchez
,
D. Ariztegui
,
et al.
Article dans une revue
hal-02621047v1
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Recommendations for the preservation of environmental samples in diatom metabarcoding studies
Ana Baricevic
,
Cécile Chardon
,
Maria Kahlert
,
Satu Maaria Karjalainen
,
Daniela Maric Pfannkuchen
,
et al.
Article dans une revue
hal-03976810v1
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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
Laure Apothéloz‐perret‐gentil
,
Agnes Bouchez
,
Tristan Cordier
,
Arielle Cordonier
,
Julie Guéguen
,
et al.
Article dans une revue
hal-02955898v1
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Diat.barcode, an open-access curated barcode library for diatoms
Frédéric Rimet
,
Evgenuy Gusev
,
Maria Kahlert
,
Martyn G. Kelly
,
Maxim Kulikovskiy
,
et al.
Article dans une revue
hal-02619171v1
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Benthic Diatom Communities in an Alpine River Impacted by Waste Water Treatment Effluents as Revealed Using DNA Metabarcoding
Teofana Chonova
,
Rainer Kurmayer
,
Frédéric Rimet
,
Jérôme Labanowski
,
Valentin Vasselon
,
et al.
Article dans une revue
hal-02381793v1
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Key questions for next-generation of biomonitoring
Andreas Makiola
,
Zacchaeus G. Compson
,
Donald J Baird
,
Matthew A. Barnes
,
Sam P Boerlijst
,
et al.
A next-generation of biomonitoring to detect global ecosystem change. Frontiers Research Topics , Frontiers in Ecology and Evolution, pp.91-104, 2020, 978-2-88966-027-8.
⟨10.3389/978-2-88966-027-8⟩
Chapitre d'ouvrage
hal-03534007v1
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River biofilm community changes related to pharmaceutical loads emitted by a wastewater treatment plant
Teofana Chonova
,
Jérôme Labanowski
,
Benoit Cournoyer
,
Cècile Chardon
,
François Keck
,
et al.
Article dans une revue
hal-01859406v1
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Freshwater biomonitoring in the Information age
Francois Keck
,
Valentin Vasselon
,
Kalman Tapolczai
,
Frédéric Rimet
,
Agnes Bouchez
Article dans une revue
hal-01604509v1
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The impact of OTU sequence similarity threshold on diatom-based bioassessment: A case study of the rivers of Mayotte (France, Indian Ocean)
Kalman Tapolczai
,
Valentin Vasselon
,
Agnes Bouchez
,
Csilla Stenger-Kovács
,
Judit Padisák
,
et al.
Article dans une revue
hal-02619428v1
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The future of biotic indices in the ecogenomic era: Integrating (e)DNA metabarcoding in biological assessment of aquatic ecosystems
Jan Pawlowski
,
Mary Kelly-Quinn
,
Florian Altermatt
,
Laure Apothéloz-Perret-Gentil
,
Pedro Beja
,
et al.
Article dans une revue
hal-02629210v1
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