Application of Four Genotyping Methods to Mycoplasma bovis Isolates Derived from Western Canadian Feedlot Cattle

Mycoplasma bovis is a significant pathogen of feedlot cattle, responsible for chronic pneumonia and polyarthritis syndrome (CPPS). M. bovis isolates (n = 129) were used to compare four methods of phylogenetic analysis, and to determine if the isolates' genotypes were associated with its origins (phenotype). Phenotypes included the health status of the animal from which they were derived (healthy, diseased, dead); feedlot operation; anatomical location (nasopharynx, lung, joint); and year (2006 to 2018). The following in-silico phylogenetic typing methods were used: multilocus sequence typing (MLST), core genome MLST (cgMLST), core genome single nucleotide variant (cgSNV) analysis, and whole genome SNV (wgSNV) analysis.