In host–parasite relationships, parasite prevalence and abundance can vary over time, potentially impacting how hosts are affected by infection. Here, the pathology, growth, condition and diet of a juvenile Cyprinus carpio cohort infected with the non-native cestode Bothriocephalus acheilognathi was measured in October 2012 (end of their first summer of life), April 2013 (end of first winter) and October 2013 (end of second summer). Pathology revealed consistent impacts, including severe compression and architectural modification of the intestine. At the end of the first summer, there was no difference in lengths and condition of the infected and uninfected fish. However, at the end of the winter period, the condition of infected fish was significantly reduced and by the end of their second summer, the infected fish were significantly smaller and remained in significantly reduced condition. Their diets were significantly different over time; infected fish consumed significantly higher proportions of food items <53 µm than uninfected individuals, a likely consequence of impaired functional traits due to infection. Thus, the sub-lethal impacts of this parasite, namely changes in histopathology, growth and trophic niche were dependent on time and/or age of the fish.