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Many parts of pork meat processing are currently not used for human consumption in Switzerland, although they are of great nutritional value. Therefore, data on the occurrence of pathogenic organisms on byproducts is extremely scarce and the prevalence and population structure of  Staphylococcus aureus  on meat processing sidestreams is unknown. Hence, abattoir byproducts of pork origin including ear, forefoot, heart, intestine, liver, rib bone, sternum, bladder, stomach, hind foot and tongue originating from six abattoirs were screened for  S .  aureus . The obtained isolates were investigated by  spa  typing and DNA microarray analysis to reveal their genomic profile and population structure. The prevalence of  S .  aureus  was generally low with a mean of 8%. In total, 40  S .  aureus  strains were detected and assigned to 12  spa  types (t015, t1491, t1778, t091, t337, t899, t2922, t7439, t1333, t208, t4049, t034) and seven clonal complexes (CC1, CC7, CC9, CC30, CC45, CC49, CC398). Detected enterotoxin genes included  sea ,  seb ,  sec ,  seh ,  sel  and  egc  encoded toxin genes  seg ,  sei ,  sem ,  sen ,  seo , and  seu . None of the isolates harbored genes conferring methicillin resistance, but  blaZ/I/R  genes causing penicillin resistance were frequently found. In addition, strains from CC398 exhibited  tetM  and  tetK , conferring tetracycline resistance. Similarity calculations based on microarray profiles revealed no association of clonal complexes with particular body parts, but revealed a certain correspondence of clonal complex and originating abattoir.

Microarray based genetic profiling of Staphylococcus aureus isolated from abattoir byproducts of pork origin