We examined the effects of predation by Nigorobuna Carassius auratus grandoculis larvae and fry, a crucian carp endemic to Lake Biwa, Japan, on the community structure of aquatic organisms in rice fields. Six experimental plots with three different rice-straw treatments in the presence/absence of stocked larvae were prepared. In each plot, the number of aquatic organisms ranging in size from 30 mu m to 5 mm in the water, as well as those from 63 mu m to 5 mm in size in the surface sediments, was surveyed 6, 13, 20, 26, 34, and 41 days after the onset of irrigation. Three-day-old fish larvae were released on day 10. Undigested organisms in the gut contents of the larvae or fry were identified on days 20, 26, 34, and 41, respectively. Ten-day-old larvae mainly preyed on Cladocera, but the fry thereafter shifted to Diptera as their main prey. While Cladocera and Podocopida decreased in fish-stocked plots, Euglenales and Halteriida became more abundant there. Top-down or bottom-up effects of fish seemed to control these changes in community structure.