This study is aimed to understand the vertical distribution of fish in the daytime and nighttime using an acoustic survey in Yondam reservoir of Jeollabuk-do, and an acoustical backscattering strength of dominant species, bass (Micropterus salmoides) and a bluegill (Lepomis macrochirus), which are classified as the ecosystem disturbing species. The results showed that the fish school was distributed in the shallow areas of less than 10 m depth during the period of Aug. and Oct. where it had a strong thermocline, otherwise, it was distributed over 10-times density under stable water temperatures as 13℃ in Nov. There was no vertical patchiness difference between daytime and nighttime unlike the typical marine ecosystem. The dominant species were crucian carp, bluegill, bass. The hydroacoustic method can provide the spatial distribution and effective removal ways of the ecosystem disturbing species in inland fisheries.