In 2011-2014 a parasitological study of 312 fish belonging to 11 species caught in three sections of the Samur-Absheron Canal was carried out. Without a doubt, the parasitic fauna of fish of the canal was formed exclusively by species that came here from the Samur River. It was determined that in this watercourse in the direction from upper part to the down part there is a clear tendency to the reduction of the number of species of the fish parasite and a decrease in the degree of infestation of fish with parasites. It can be assumed, that some of the parasites, in particular, the species, poorly adapted to the rapid flow infect fish in the Samur River, and only after that they are brought by fish in the canal. For this reason, these parasites are found by us only in the upper reaches of the canal.