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

Environmental Science and Pollution Research volume 25, pages 33858–33866 (2018)Cite this article

Abstract

The effectiveness of environmental protection measures is based on the early identification and diagnosis of anthropogenic pressures. Similarly, restoration actions require precise monitoring of changes in the ecological quality of ecosystems, in order to highlight their effectiveness. Monitoring the ecological quality relies on bioindicators, which are organisms revealing the pressures exerted on the environment through the composition of their communities. Their implementation, based on the morphological identification of species, is expensive because it requires time and experts in taxonomy. Recent genomic tools should provide access to reliable and high-throughput environmental monitoring by directly inferring the composition of bioindicators’ communities from their DNA (metabarcoding). The French-Swiss program SYNAQUA (INTERREG France-Switzerland 2017–2019) proposes to use and validate the tools of environmental genomic for biomonitoring and aims ultimately at their implementation in the regulatory bio-surveillance. SYNAQUA will test the metabarcoding approach focusing on two bioindicators, diatoms, and aquatic oligochaetes, which are used in freshwater biomonitoring in France and Switzerland. To go towards the renewal of current biomonitoring practices, SYNAQUA will (1) bring together different actors: scientists, environmental managers, consulting firms, and biotechnological companies, (2) apply this approach on a large scale to demonstrate its relevance, (3) propose robust and reliable tools, and (4) raise public awareness and train the various actors likely to use these new tools. Biomonitoring approaches based on such environmental genomic tools should address the European need for reliable, higher-throughput monitoring to improve the protection of aquatic environments under multiple pressures, guide their restoration, and follow their evolution.

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Funding

The SYNAQUA project is supported by the European Cross-Border Cooperation Program (Interreg France-Switzerland 2014-2020) and has thus received a European (European Regional Development Fund) and a Swiss Federal grant covering respectively 60% of the French total cost and 29% of the Swiss total cost. Funding was also provided by Swiss cantons (Valais, Geneva, Vaud).

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Authors and Affiliations

  1. Eco-in’Eau, 34980, Montferrier sur Lez, France

    Estelle Lefrançois

  2. UMR CARRTEL, INRA, USMB, 74200, Thonon-les-Bains, France

    Estelle Lefrançois, Cécile Chardon, Laura Crepin, Isabelle Domaizon, Julie Guéguen, Jean-Christophe Hustache, Louis Jacas, Stephan Jacquet, Sonia Lacroix, Pascal Perney, Frédéric Rimet, Dominique Trevisan & Agnès Bouchez

  3. Département de Génétique et Evolution, Université de Genève, 1205, Geneva, Switzerland

    Laure Apothéloz-Perret-Gentil, Tristan Cordier & Jan Pawlowski

  4. Philippe Blancher, 69230, Saint-Genis-Laval, France

    Philippe Blancher

  5. ASTERS Conservatoire D’Espaces Naturels De Haute-Savoie, 74370, Pringy, France

    Samuel Botreau & Anne-Laurence Mazenq

  6. Service de l’Ecologie de l’Eau, République et Canton de Genève, 1211, Geneva, Switzerland

    Arielle Cordonier

  7. Swiss Centre for Applied Ecotocicology (Ecotox Centre) EAWAG-EPFL, 1015, Lausanne, Switzerland

    Benoit J. D. Ferrari & Régis Vivien

  8. ID-GENE Ecodiagnostics, Campus Biotech Innovation Park, 1202, Geneva, Switzerland

    Alina Pawlowska

  9. Maison de la Rivière, 1131, Tolochenaz, Switzerland

    Jean-François Rubin

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  1. Estelle Lefrançois
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Correspondence to Estelle Lefrançois.

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Responsible editor: Philippe Garrigues

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Lefrançois, E., Apothéloz-Perret-Gentil, L., Blancher, P. et al. Development and implementation of eco-genomic tools for aquatic ecosystem biomonitoring: the SYNAQUA French-Swiss program. Environ Sci Pollut Res 25, 33858–33866 (2018). https://doi.org/10.1007/s11356-018-2172-2

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Keywords

  • Metabarcoding
  • Bioindication
  • Water quality assessment
  • Diatoms
  • Aquatic oligochaetes