biostudies-literatureKarthik KDepartment of Biotechnology, Ministry of Science and Technology, India257https://www.ebi.ac.uk/biostudies/studies/S-EPMC11452369biostudies-literatureUnknown14(11)Clostridioides difficile, a zoonotic pathogen causing enteric diseases in different animals and humans. A comprehensive study on the presence of toxin genes and antimicrobial resistance genes based on genome data of C. difficile in animals is scanty. In the present study, a total of 15 C. difficile isolates were recovered from dogs and isolates with toxin genes (D1, CD15 and CD26) along with two other non-toxigenic strains (CD28, CD32) were used for whole genome sequencing and comparative genomics. Sequence type-based clustering was noted in the whole genome phylogeny with 4 known multi-locus sequence typing (MLST) clades namely I, II, IV, and V and a cryptic clade. ST11 and ST54 were reported for the 2nd time worldwide in dogs. Out of 109 genomes used in th3 BiotechComparative genomics of zoonotic pathogen Clostridioides difficile of animal origin to understand its diversity.PMC11452369BT/PR25444/NER/95/1200/2017Anbazhagan SSharma RKKarthik KManoharan SPriyadharshini MLMfalseComparative genomics of zoonotic pathogen Clostridioides difficile of animal origin to understand its diversity.Clostridioides difficile, a zoonotic pathogen causing enteric diseases in different animals and humans. A comprehensive study on the presence of toxin genes and antimicrobial resistance genes based on genome data of C. difficile in animals is scanty. In the present study, a total of 15 C. difficile isolates were recovered from dogs and isolates with toxin genes (D1, CD15 and CD26) along with two other non-toxigenic strains (CD28, CD32) were used for whole genome sequencing and comparative genomics. Sequence type-based clustering was noted in the whole genome phylogeny with 4 known multi-locus sequence typing (MLST) clades namely I, II, IV, and V and a cryptic clade. ST11 and ST54 were reported for the 2nd time worldwide in dogs. Out of 109 genomes used in th2024-01-01T00:00:00Z2024 Nov2026-05-15T03:12:06.392Z2026-05-15T03:07:58.209ZS-EPMC114523693937249510.1007/s13205-024-04102-7