Summary This dataset contains fish community data collected in the Shubuto River basin, Japan. Sampling protocols are described in Terui and Miyazaki (2016) and Miyazaki and Terui (2016) Colum specification Year: sampling year StCode: site code VisitCode: visit code Genus: genus of the species LatinName: scientific name of the species Species_ja: Japanese name of the species Abundance: number of individuals collected Sample_area: area sampled (unit: square meter) Lat: latitude (WGS84) Lon: longitude (WGS84) References Miyazaki Y, Terui A (2016) Temporal dynamics of fluvial fish community caused by marine amphidromous species in the Shubuto River, southwestern Hokkaido, Japan. Ichthyological Research 63: 173-179. https://doi.org/10.1007/s10228-015-0474-7 Terui A, Miyazaki Y (2016) Three ecological factors influencing riverine fish diversity in the Shubuto River system, Japan: habitat capacity, habitat heterogeneity and immigration. Limnology 17: 143-149. https://doi.org/10.1007/s10201-015-0472-5