question: Cryptosporidium is an obligate intracellular parasite which can cause fatal diarrheal disease in exotic animals. Sugar gliders (Petaurus breviceps), hedgehogs (Atelerix albiventris), chinchillas (Chinchilla lanigera), and common leopard geckos (Eublepharis macularius) are popular exotic animals commonly sold in pet shops in Japan. We herein investigated the species and subtypes of Cryptosporidium in these animals. Cryptosporidium fayeri was detected in a sugar glider in a Japanese animal hospital. Sequence analyses of the 60-kDa glycoprotein (gp60) gene revealed that C. fayeri belonged to subtype family IVh (IVhA13G2T1), which was proposed to be a new subtype. This is the first study to report C. fayeri infection in a sugar glider. In other animals, the Cryptosporidium horse genotype, C. ubiquitum, and C. varanii were detected in two four-toed hedgehogs (A. albiventris), a chinchilla (C. lanigera), and common leopard gecko (E. macularius), respectively. The gp60 subtypes identified were VIbA13 of the horse genotype and XIId of C. ubiquitum. The present results revealed that potentially zoonotic Cryptosporidium is widespread in exotic animals in Japan.