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Preservation of a good ecological status in riverine habitats emerged as a priority for water management policies in Europe since the negative impact caused by the construction and operation of dams on the ecohydrology and habitat availability became more evident. Ecological flows, as reported in the recently published European guidance, represent a link between water and habitat EU Directives. This study presents the application of a mesohabitat simulation model (MesoHABSIM) to evaluate and quantify ecological flows in a highly regulated Mediterranean watershed (Nestos River, Northern Greece). Data collection was performed through GIS/GPS mapping surveys, hydro-morphological measurements (water depth, flow, substratum type, etc.) and electrofishing samplings at mesohabitat scale under different discharge conditions. In total, 81 hydro-morphological units were surveyed and 7532 fish samples …