Enterocytozoon bieneusi belongs to the phylum Microsporidia, a parasite reported to infect various domestic animals, wildlife and humans, thereby causing an intestinal disease characterized by severe or chronic diarrhea and malabsorption. The typical mode of transmission is contaminated water and food. Few studies on E. bieneusi infections have been reported in reptiles, however, our report focuses on the molecular characterization of E. bieneusi infection in snakes in China. We collected a total of 603 fecal samples from snakes in China. The samples were tested for the presence of E. bieneusi through PCR amplification of the internal transcribed spacer (ITS) locus. Our analysis showed E. bieneusi overall prevalence rate of 15.59 %, the highest prevalence was recorded in Eastern rat snake (21.99 %), followed by Corn snake (19.63 %) while the prevalence of 18.39 %, 15.79 %, 13.56 % were recorded in Common garter snake, Pine snake, Hognose snake respectively. Eastern kingsnake has the lowest infection rate of 5.71 %. Genotype analysis identified 26 distinct genotypes: 8 known and 18 novel. Phylogenetic analysis revealed that 25 genotypes belonged to Group 1, which includes isolates from various animal hosts and humans. However, genotype GX29 was classified under Group 9. Our study indicates that pet snakes are one of the potential sources of transmission of zoonotic microsporidiosis in China.
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