Abstract: Rotifer and artemia are indispensable living food in aquatic larval animal breeding. In order to evaluate bacterial communitiy change in rotifer and artemia enriching process with probiotics adding for turbot larva breeding, their microflora were analyzed using high-through sequencing technique based on illumina HiSeq platform. The results revealed that the diversity of experimental group with probiotics addition was higher than control group, which was the normal process in breeding. During rotifer enrichment process, the bacterial community structures of control group at different time were obviously different, and the dominant bacteria species varied greatly. However, bacterial community structures in different experimental groups were similar, and the dominant bacteria species were more diverse.Lactococcus sp.,Pseudoalteromonas sp. andAlteromonas sp. as main bacteria appeared in each experimental group. In artemia enrichment process, bacterial communities of each control group were highly similar. The dominant bacteria ofCobetia sp. relative abundance reached 54%–65.2% in control group. With probiotic adding, bacterial community of each experimental group were still highly similar, butCobetia sp. declined to 4.3%–25.3%,Pseudoalteromonas sp. andAlteromonas sp. became the new dominant bacteria. In conclusion, our findings showed that the bacterial community structure of living food for aquatic animal larva changed obviously and trended to be stable with probiotic adding, and the bacteria species in them became more uniform.