Résumé
Reunion Island is in the South-West Indian Ocean (SWIO), where all freshwater fish species are diadromous. The ecological status assessments of freshwater in watersheds have revealed a continuing deterioration in these fish populations due to anthropic pressures. In this context, monitoring the fish's biological sustainability is crucial to ensure the health of these estuarine ecosystems. The aim of this study was to compare the efficacy of conventional electrofishing monitoring (EF) with the environmental DNA metabarcoding tool to evaluate fish biodiversity in the estuaries. We measured the diversity and structure of the fish community in three estuaries with various geographical, hydrological, and anthropogenic conditions over different seasons. To this end, fish were captured by EF, and we then isolated DNA from the water samples to perform bioinformatic analyses derived from eDNA, using the 12S marker. Statistical analyses were carried out to compare the results of these two methods. For all watersheds combined, a comparison of the results for measuring fish richness showed that eDNA performed significantly better than EF. Indeed, the eDNA detected 31 species, whereas the EF detected only 12 species. For both methods, we observed significant differences in community structure between watersheds, with a significant nestedness phenomenon where the fish assemblage obtained from EF captures is a sub-assemblage of that obtained from eDNA. Moreover, compared to EF, eDNA enabled the detection of endemic to the Mascarene region species (e.g., Cotylopus acutipinnis), introduced exotic species (e.g., Oreochromis niloticus), and species difficult to capture and identify due to their juvenile life stage through EF (e.g., Anguilla sp.). Our data confirm the effectiveness of eDNA to detect fish species, both taxonomically and in terms of species richness and proves to be an effective tool for monitoring fish diversity of the islands of the SWIO. | IntroductionEstuaries are important transition zones between marine and freshwater ecosystems (Levin et al. 2001; Borja et al. 2011). By promoting the exchange of nutrients along the longitudinal axis of watershed, these connectivity zones ensure the survival and migration of many aquatic organisms, including fish (Shao et al. 2019). A large proportion of these fish have a diadromous life cycle, migrating between rivers and coastal areas during their lifetime (March et al. 2003). Anthropogenic pressures from watershed, such as agricultural pollution, hydraulic infrastructure, and urbanization, are major and growing threats to this aquatic biodiversity (Dudgeon et al. 2006; O'Brien et al. 2019). Fish communities, because of their This is an open access article under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non-commercial and no modifications or adaptations are made.