In this research, strains with antibacterial activity on Methicillin-resistant Staphylococcus aureus.246 tested strains was screened and identified, Antibacterial test results showed that five strains had antibacterial activity, among which strain 1012-4 showed the strongest activity. Morphological, physiological and biochemical characterization, as well as API50 CHB method, were adopted to determine the type of strain 1012-4. Preliminary results suggested that the stain 1012-4 was of Bacillus subtilis species. Through 16S rDNA gene sequence alignment, the strain 1012-4 was further identified as the genus Bacillus and Bacillus subtilis species. Verification test confirmed that, the strong antibacterial activity of strain 1012-4. This research provided new strain source for the research and development of new anti-MRSA drugs.