Parasitological investigation was carried out in the indigenous cyprinid fish, to understand the seasonal variation of infection in a nutrient-enriched water bodies viz. Dal lake and Jhelum river. Three fish species (Schizothorax niger, Schizothorax esocinus, Schizothorax curvifrons) were recovered from two water bodies of Kashmir valley from which Bothriocephalus acheilognathi (30.63%) were detected and identified. Samples of water, fish and parasite were collected during different seasons from various sites and processed. In Dal lake the overall prevalence of parasitic infection was highest during summer (prevalence = 31.4%) and lowest during winter (prevalence = 18.6%). Contrary to this in Jhelum river the prevalence was highest during summer (prevalence = 46.9%) and lowest during winter (prevalence = 17.85%). Sex was not an important factor influencing the prevalence of the Asian tapeworm (B.acheilognathi). Thus seasonal dynamics influenced the tapeworm infection. The above findings will be useful in devising the appropriate control strategies for the B.acheilognathi in fishes of Kashmir valley. The presence of the parasites had reduced the condition coefficient of the infected fishes in both the water bodies. Histopathologically, the parasite induced various intensities of enteritis coupled with hyperplastic goblet cells with increased acid mucopolysaccharide concentrations.