Competition between native and invasive species may bring about a suite of ecological and evolutionary outcomes, including local extirpations. In the Laurentian Great Lakes, competition for food may explain the dramatic decline of Diporeia spp. amphipods following the introduction of dreissenid mussels. This hypothesis has not been confirmed, in part because dreissenids and Diporeia appear to co-exist and flourish in other systems, including the Finger Lakes of New York. We used carbon, nitrogen, hydrogen, and oxygen stable isotope ratios to examine resource use by Diporeia from three spatially distinct populations (Lake Michigan, Lake Superior, and Cayuga Lake), dreissenids from areas where they co-occur with Diporeia (Lake Michigan and Cayuga Lake), and Diporeia from Lake Michigan collected before and after dreissenid invasion . Our results suggest that dreissenids may affect resource use by Diporeia in areas of co-occurrence, but the extent to which those effects are positive or negative is unclear. Terrestrial inputs may provide an important subsidy for Diporeia populations in small systems but may not be substantial enough in the Great Lakes to ensure that both taxa thrive.