In this work results from April to September 2009 are presented, which comprosed analyses of samples from 15 stations along Montenegrin coast. The main aim was to estimated level of eutrophication and phytoplankton community characteristic for eutrophic area. Maximum mean value of microplankton of 8.4 x 10**5 cells/l was noted in the inner part of Bokakotorska Bay. This area has maximal values throughout all period of investigation. It is result of waters dynamics and influence from the coast. In the open sea values were lower, about 10**4 cells/l. These results show that Montenegrin coast is an eutrophic region. Some phytoplankton organisms characteristic for eutrophic region were found also. The most abundant species was Thalassionema nitzschioides with maximum mean value of 8.4 x 10**5 cells/l.

Qualitative and quantitative phytoplankton analysis was determined using standard microscopic methods and high performance liquid chromatography (HPLC) in the Bay of Kotor, seasonally, from April 2008 to March 2009. Diatoms represents dominant group of microphytoplankton with maximum in spring period. Dinoflagellates reached maximum value in summer period, and followed by cyanobacteria bloom. Dominant biomarkers, fucoxanthin, alloxanthin, 19'-heksanoloksifukoxanthin, zeaxanthin and chlorophyll b, show a similar distribution as the appropriate phytoplankton assemblages during the researches in Kotor Bay.