Traditional broad-spectrum antibacterial agents are limited by high toxicity and the destruction to the bacterial flora balance in the wound site. Herein, we propose an opinion that one or several especial antibacterial peptides are adopted to kill the target bacteria in order to precisely manage the bacteria infected chronic wound under the premise of biobalance, and specially employ nisin to treat S. aureus infected chronic wound as model with positive effects. The results showed that without cytotoxicity to the normal cells, only 25 ppm nisin could contrapuntally kill S. aureus and have little inhibitory to other bacteria. Mechanism of antibacterial selectivity indicated the superior biomolecular interaction between nisin and S. aureus compared with E. coli and normal cells. Furthermore, nisin significantly accelerated the healing process of S. aureus-infected rabbit full thickness burn wound, but had no effect on the E. coli-infected wound as a comparison. Therefore, it has been demonstrated that special peptides with antibacterial selectivity can be adopted to precise management for bacteria infected chronic wound under good biobalance.