The Sanandaj Gheshlagh Reservoir (SGR) is a mercury polluted lake that is located in the West of Iran. Common carp (Cyprinus carpio) and silver carp (Hypophthalmichthys molitrix) are the most abundant fishes in the SGR. A total of 48 common and silver carps (24 each) were captured randomly, using 50×6 m gill net (mesh size: 5×5 cm) during July to December 2009. Each month, the levels of accumulated total mercury (T-Hg) in white muscle, red muscle and liver tissues of these fishes were measured using an Advanced Mercury Analyzer (Model; Leco 254 AMA, USA) on the dry weight basis. There were no statistically significant differences between T-Hg concentrations in white muscle, red muscle and liver in common carp in comparison with similar tissues in silver carp (P>0.05). The content of T-Hg in liver tissue of both species was lower than of white and red muscle tissues. Higher levels of accumulated T-Hg were observed during summer. Results showed that T-Hg concentrations in common and silver carps target tissues were strongly dependent on age, length and weight (P<0.05). The results indicated that the levels of accumulated T-Hg in tissues of all samples with weights of over 850 g were greater than those limits established by WHO and FAO (500 ng g(-1)).