We analyzed a New York (USA) state database of mercury concentrations in muscle tissue for five species of fish (striped bass, yellow perch, largemouth bass, smallmouth bass, and carp) over a range of locations in the Hudson River (USA) between 1970 and 2004. We used regression models to discern temporal and geographic change in the fish while controlling for a positive correlation between mercury concentration and body mass. Mercury concentrations significantly increased in fish from New York Harbor waters to the mid-Hudson River. Striped bass and yellow perch showed a shallower increase in mercury concentration with river mile than did carp, largemouth bass, and smallmouth bass. Mercury concentrations declined over the 34-year period. These results imply that a geographically restricted source of mercury may be spread throughout the watershed by toxin-laden dispersing species. The increase of mercury toward the north may relate to a point source in the mid-Hudson River, or it may indicate mercury released from the Adirondack watershed. The decline of mercury over three decades corresponds to a reduction of various inputs in the region. The temporal and geographic pattern of mercury in sediments corresponds to the geographic trend of mercury in fish.