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Campylobacter jejuni  is the leading bacterial cause of gastroenteritis worldwide with excessive incidence in low-and middle-income countries (LMIC). During a survey for  C. jejuni  from putative animal hosts in a town in the Peruvian Amazon, we were able to isolate and whole genome sequence two  C. jejuni  strains from domesticated guinea pigs ( Cavia porcellus ). The  C. jejuni  isolated from guinea pigs had a novel multilocus sequence type that shared some alleles with other  C. jejuni  collected from guinea pigs. Average nucleotide identity and phylogenetic analysis with a collection of  C. jejuni  subsp . jejuni  and  C. jejuni  subsp . doylei  suggest that the guinea pig isolates are distinct. Genomic comparisons demonstrated gene gain and loss that could be associated with guinea pig host specialization related to guinea pig diet, anatomy, and physiology including the deletion of genes involved with selenium metabolism, including genes encoding the selenocysteine insertion machinery and selenocysteine-containing proteins.

Genomic Characterization of Campylobacter jejuni Adapted to the Guinea Pig (Cavia porcellus) Host