This dataset has been prepared as part of the Interreg Alpine Space project Eco-AlpsWater (ASP569) - Innovative Ecological Assessment and Water Management Strategy for the Protection of Ecosystem Services in Alpine Lakes and Rivers https://www.alpine-space.eu/project/eco-alpswater/ Methods are reported in: - Salmaso, N., V. Vasselon, F. Rimet, M. Vautier, T. Elersek, A. Boscaini, C. Donati, M. Moretto, M. Pindo, G. Riccioni, E. Stefani, C. Capelli, F. Lepori, R. Kurmayer, U. Mischke, A. K. Klemenčič, K. Novak, C. Greco, G. Franzini, G. Fusato, F. Giacomazzi, A. Lea, S. Menegon, C. Zampieri, A. Macor, D. Virgilio, E. Zanut, R. Zorza, F. Buzzi, & I. Domaizon, 2022. DNA sequence and taxonomic gap analyses to quantify the coverage of aquatic cyanobacteria and eukaryotic microalgae in reference databases: Results of a survey in the Alpine region. Science of The Total Environment 834: 155175, https://doi.org/10.1016/j.scitotenv.2022.155175.- Salmaso, N., S. Bernabei, A. Boscaini, C. Capelli, L. Cerasino, I. Domaizon, T. Elersek, C. Greco, A. Krivograd Klemenčič, P. Tomassetti, & R. Kurmayer, 2024. Biodiversity patterns of cyanobacterial oligotypes in lakes and rivers: results of a large-scale metabarcoding survey in the Alpine region. Hydrobiologia 851: 1035–1062, https://doi.org/10.1007/s10750-023-05423-z.