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The Water Framework Directive (WFD) requires Member States to develop appropriate assessment methods for the classification of the ecological status of their surface waters. Mediterranean region has lagged behind in this task, so we propose here the first developed method for Greek lakes, Hellenic Lake Macrophyte (HeLM) assessment method. This method is based on two metrics, a modified trophic index and maximum colonization depth Cmax that quantify the degree of changes in lake macrophytic vegetation, as a response to eutrophication and general degradation pressures. The method was developed on the basis of a data set sampled from 272 monitoring transects in 16 Greek lakes. Sites from three lakes were selected as potential reference sites by using a screening process. Ecological quality ratios were calculated for each metric and for each lake, and ecological status class boundaries were defined. For the evaluation of effectiveness of the method, the correlations between individual metrics and final HeLM values and common pressure indicators, such as total phosphorus, chlorophyll a and Secchi depth, were tested and found highly significant and relatively strong. In addition, the ability of HeLM values and its individual metrics to distinguish between different macrophytic communities’ structure was checked using aquatic plant life-forms and found satisfactory. The HeLM method gave a reliable assessment of the macrophytic vegetation’s condition in Greek lakes and may constitute a useful tool for the classification of ecological status of other Mediterranean lakes.Electronic supplementary materialThe online version of this article (10.1007/s10661-018-6708-1) contains supplementary material, which is available to authorized users.

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Aims: This study aims to contribute to the knowledge of European freshwater lake ecosystems with updated and new information on aquatic plant communities, by conducting national-scale phytosociological research of freshwater lake vegetation in Greece. Moreover, it investigates the relationship between aquatic plant communities and lake environmental parameters, including eutrophication levels and hydro-morphological conditions. Study area: Lakes in Greece, SE Europe. Methods: 5,690 phytosociological relevés of aquatic vegetation were sampled in 18 freshwater lake ecosystems during 2013–2016. The relevés were subjected to hierarchical cluster and indicator species analyses in order to identify associations and communities of aquatic vegetation, as well as to describe their syntaxonomy. Multiple regression analysis was applied to investigate the relationship between vegetation syntaxa and environmental parameters of lakes, i.e. physico-chemical parameters and water level fluctuation. Results: Ninety-nine plant taxa belonging to 30 different families were recorded. Forty-six vegetation types were identified and described by their ecological characteristics, diagnostic taxa and syntaxonomical status. Thirteen vegetation types, the largest number belonging to the vegetation class Charetea, are considered to be new records for Greece. The distribution of the vegetation types recorded in the 18 freshwater lakes was found to depend on environmental parameters and levels of eutrophication. Conclusions: An updated aquatic vegetation inventory was produced for Greek lakes, and primary results showed that the presence/absence of aquatic plant communities and the community composition in freshwater lakes can be utilized to assess the pressure of eutrophication on lake ecosystems. Taxonomic reference: Euro+Med (2006–). Abbreviations: MNT = Mean number of taxa; WFD = Water Framework Directive.