The present study was designed to investigate the cytotoxic effects and bioaccumulation of heavy metals iron (Fe), zinc (Zn), copper (Cu), cadmium (Cd), lead (Pb), manganese (Mn), nickel (Ni), and chromium (Cr) in different parts (muscle, gills, and liver) of Tilapia zillii occurring in polluted drainage canal and fish farm, which is located in Abiece region in front of village number 10, Alexandria governorate, Egypt. Results of water analysis revealed the concentration of Cd, Pb, Mn, Ni, and Cr exceeded the limits defined by the American Public Health Association (APHA) in the polluted drainage canal. In addition, the concentration of Ni elevated to the standard limits of APHA and Cu was not detected in the fish farm. Different types of chromosomal aberrations were recorded (e.g., stickiness, fragmented chromosomes, centromeric gaps, chromatid break, chromatid deletion, and tetraploid). Micronucleus frequency was found to be 5.58 in the polluted drainage canal group and 0.32 in the fish farm group. Other nuclear abnormalities such as blebbed nucleus, segmented nucleus, enucleated erythrocyte, kidney-shaped nucleus, heart-shaped nucleus, polymorphic irregular nuclei, binucleated cell, nuclear fragmented erythrocyte, long nucleus, putative fragmented notched nucleus, lobed nuclei, fused erythrocytes, necrotic erythrocyte, and vacuolated nucleus were recorded. The total of erythrocytes nuclear morphological abnormalities was 70.33% in the polluted drainage canal and 1.78% in the fish farm.