Most ecosystems are exposed to multiple stressors acting in concert and their combined effects on parasite prevalence in freshwater, marine and terrestrial habitats are largely unknown. We investigated the relationships between farming intensity, water abstraction intensity and parasite prevalence in the mud snail Potamopyrgus antipodarum from 20 stream sites within the Manuherikia River catchment (New Zealand) by using generalized linear models and an information-theoretic model-selection approach. Three trematode taxa that use water birds as definitive hosts were found in the snail host. The average prevalence of all parasites infecting Potamopyrgus in the catchment was 5%. Microphallus sp. " lively " , the most common parasite, was most prevalent at high farming intensity and low water abstraction, besides showing an antagonistic interaction between the two agricultural stressors. These findings highlight the importance of considering multiple stressors and their potential interactions when studying host–parasite systems. Because snails often play key roles in aquatic communities, providing an important link between primary producers and higher trophic levels, and are a common intermediate host to a high diversity of trematode parasites, this host–parasite model system may represent a promising bioassessment tool for detecting anthropogenic disturbances in freshwater systems.