Objective To investigate Staphylococcus aureus contamination in food in Wenzhou, and to analyze the drug resistance, enterotoxin genes distribution and pulsed-field gel electophroresis(PFGE) patterns. Methods According to GB 4789.10-2010 National Food Safety Standard Food Microbiological Examination:Staphylococcus aureus, the strains were isolated and identified. The Kirby-Bauer method was used in drug sensitivity test. Mini-VIDAS and polymerase chain reaction(PCR)were used to detect the Staphylococcus aureus enterotoxin and its genes. All strains were subtyped by PFGE. Results Four categories of 388 samples were collected. Sixteen Staphylococcus aureus strains were isolated with a positive rate of 4.12% and livestock meat and poultry meat got the highest detection rate as 13.89%(5/36)and 11.11%(4/36), respectively. All strains were antibiotic-resistant to at least one drug, and the resistant rate to penicillin was the highest(100.00%,16/16), followed by erythromycin(56.25%,9/16), and 18.75%(3/16)strains displayed multi-drug resistance. No methicillin-resistant Staphylococcus aureus(MRSA) was detected. The prevalence rates were 56.25%(9/16)in enterotoxin and its genes, among which seb and seg gene were more frequently found 37.50%(6/16). The 16 isolates were divided into 12 PFGE patterns. Conclusion The food was contaminated by Staphylococcus aureus to some degree in Wenzhou. Foodborne Staphylococcus aureus isolated in Wenzhou showed molecular polymorphism and strong enterotoxin-producing ability. The prevalence rates of enterotoxin gene was high, which may result in potential risks to food safety.