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The results of application of 2D finite element model SHYFEM to the Curonian lagoon (Baltic Sea) are considered. SHYFEM consist of a physical processes module and an eutrophication module EUTRO adapted for the SHYFEM code from well known modelling system WASP. The SHYFEM/EUTRO model calibration results were compared with the performance of various biogeochemical models analysed in other studies (153 studies published from 1990 to 2002). The performance of all corresponding state variables—dissolved oxygen, NO3, NH4, PO4, phyto- and zooplankton—was slightly lower than median model performance which could be considered satisfactory given the initial state of model formulation and calibration. Model underestimates phytoplankton autumn blooms, especially for the southern part of the lagoon, where fine sediments dominate and water residence time is high. It can be concluded that, in order to increase model performance, the eutrophication module should be improved to account for the dominance of different phytoplankton groups as well as for the exchanges between the sediments and the water column. The amount and quality of the data available for the model setup and calibration are unsatisfactory and should be improved for the development of the next enhanced model version. [ABSTRACT FROM AUTHOR]