High mountain lakes are a network of sentinels, sensitive to any events occurring within their waterbodies, their surrounding catchments and their airsheds. By modifying nutrient balance and availability in water, both local and global changes are expected to alter primary productivity and to trigger strong ecological impacts in these ecosystems. Predicting ecological trajectories under future change is a key challenge for both scientists and conservation managers. French alpine lakes, in the most southern and western part of the European Alps, have received surprisingly little attention to date. In this article, we address how variations in nitrogen (N) and phosphorus (P) supply are likely to impact the area's phytoplankton growth. We performed N and/or P enrichment microcosm experiments under controlled conditions on 12 phytoplankton assemblages sampled during the summer 2016 in four French alpine lakes with contrasting catchments and N‐deposition regimes. The nutrients limiting phytoplankton growth varied according to the nutrient stoichiometry of the lake water. In the lakes exposed to high N‐deposition rates (≈700 kg N km–2 year–1), the water contained more N than P and phytoplankton growth in microcosms was either limited by P or not limited by either N or P. In the lakes exposed to low N‐deposition rates (≈500 kg N km–2 year–1), N availability relative to P was lower in the lake with vegetated catchment than in the lake with rocky catchment, resulting in a switch from P to NP colimitation of the phytoplankton in microcosms. Our data clearly indicate that French alpine lakes do not host the same diversity and structure of phytoplankton communities and that phytoplankton composition influenced phytoplankton growth in microcosms. First, we show that nonmotile colonial chlorophytes appeared in late summer assemblages, with lower growth rates but P‐storage abilities. Second, our findings indicate that the growth of phytoplankton assemblages dominated by diatoms was increasingly limited by silica (SiO2) throughout the summer, along with a 70% decrease in SiO2 concentration in lake water. The forecast global changes in the French Alps should increase phytoplankton growth in most high mountain lakes where P is the main limiting nutrient, before NP colimitation. These changes are likely to be of lesser extent in lakes with large vegetated catchments in the northern area with lower N‐deposition rates and of greater extent in the southern area with higher N‐deposition rates and future P‐deposition rates. By investigating the relationship between nutrient availability, phytoplankton composition and phytoplankton growth rate, this experimental laboratory microcosm study will help interpret current multifactorial data from in situ monitoring networks in the Alps. It will also be helpful to develop models to better predict the sentinel lake responses to local and global changes.

High mountain lakes are a network of sentinels, sensitive to any events occurring within their waterbodies, their surrounding catchment and their airshed. In this paper, we investigate how catchments impact the taxonomic and functional composition of phytoplankton communities in high mountain lakes, and how this impact varies according to the atmospheric nutrient deposition regime. For two years, we sampled the post snow-melt and the late summer phytoplankton, with a set of biotic and abiotic parameters, in six French alpine lakes with differing catchments (size and vegetation cover) and contrasting nitrogen (N) and phosphorus (P) deposition regimes. Whatever the nutrient deposition regime, we found that the lakes with the smallest rocky catchments showed the lowest functional richness of phytoplankton communities. The lakes with larger vegetated catchments were characterized by the coexistence of phytoplankton taxa with more diverse strategies in the acquisition and utilization of nutrient resources. The nutrient deposition regime appeared to interact with catchment characteristics in determining which functional groups ultimately developed in lakes. Photoautotroph taxa dominated the phytoplankton assemblages under high NP deposition regime while mixotroph taxa were even more favored in lakes with large vegetated catchments under low NP deposition regime. Phytoplankton functional changes were likely related to the leaching of terrestrial organic matter from catchments evidenced by analyses of carbon (δ 13 C) and nitrogen (δ 15 N) stable isotope ratios in seston and zooplankton. Plankton δ 15 N values indicated greater water-soil interaction in lakes with larger vegetated catchments, while δ 13 C values indicated the effective mineralization of the organic matter in lakes. There is even more reason to consider the role played by catchments when seeking to determine the vulnerability of high altitude lakes to future changes, as catchments' own properties will vary under changes related to climate and airborne contaminants.