Forty-six chiropteran specimens from seven species have been captured on the territory of Southern Siberia. From them, 676 ectoparasites of 16 species (gamasid mites and insects) were collected. The bat fly Basilia mongolensis mongolensis Theodor, 1966 was found in Russia for the first time. The gamasid mites Spinturnix maedai Uchikawa et Wada, 1979 and Macronyssus hosonoi Uchikawa, 1979 have not previously been registered in Siberia. Several species have been recorded on new hosts. Three species of gamasid mites out of the genus Macronyssus are, probably, new to science. New data on the ecology of low-abundant and understudied bat species belonging to the Siberian-Far Eastern complex have been provided.