A new study published in Environmental DNA presents a comprehensive methodological framework for developing reliable and quantitative metabarcoding approaches applied to freshwater zooplankton communities. The work brings together several teams from the AnaEE France network, including CARRTEL/OLA (INRAE – Université Savoie Mont Blanc), U3E, DECOD, SETE, and the CEREEP–Ecotron IDF.
The article introduces:
- new metabarcoding primers specifically designed for Cladocerans, Copepods and Rotifers;
- a systematic evaluation of sampling, storage and DNA extraction methods, highlighting the importance of cold storage and sufficient biomass to minimise diversity loss;
- a detailed quantification of primer-related amplification biases, identified as the main factor affecting quantitative interpretation.
These results provide a solid foundation for standardising molecular monitoring of lake ecosystems and improving the integration of zooplankton into ecological quality assessment tools.
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