The present study aims to reveal bacterial diversity changes of modified atmosphere packaging Chinese soft-shelled turtle， so as to provide reference for the preservation. The composition and diversity in bacterial communities in modified atmosphere packaging（50%CO2 / 50%N2，3mL∶1g） Chinese soft-shelled turtle during chilled storage （4 ℃） were investigated，using metagenomic approach. Results indicated that during the storage， the richness of microbial community went up gradually， while the diversity of microbial community incresed at first then decreased significantly； the dominant spoilage bacterias was Shewanella （29.68%）. It was proved that modified atmosphere packaging could effectively inhibit the growth of spoilage microorganism （Pseudomonas， Flavobacterium）. Modified atmosphere packaging was a good choice for Chinese soft-shelled turtle preservation.