The aim of this study was to investigate the kinetics of accumulation and elimination of microcystins in the tissues of Nile tilapia (Oreochromis niloticus) and to evaluate the effect of cyanobacterial exposure on fish muscle quality (levels of total fat and ash, protein, dry matter and the composition of saturated, monounsaturated and polyunsaturated fatty acids). Fish were exposed for 28 days to a natural cyanobacterial bloom with total microcystin concentration around 1,200 μg g⁻¹ biomass dry weight. The hepatopancreas accumulated microcystins up to 350 ng g⁻¹ fresh weight, but concentrations in muscle were generally below the detection limit (2 ng g⁻¹ fresh weight). Following the exposure, fish were moved to the clean water, but only minor microcystin removal from the hepatopancreas was observed during a 4 week depuration period. Exposures of tilapia to the complex cyanobacterial bloom had only minor and temporary impacts on the investigated parameters of dietetic quality.