Using PCR amplification and sequencing,642 bp of cytochrome c oxidase subunitⅠ(COⅠ)partial sequences and 1 138 bp of Cytb partial sequences were obtained from Oplegnathus fasciatus.In COⅠ sequences,a total of 21 polymorphic sites defined 11 distinct haplotypes.And 4 transition loci,5 transversion loci and no insertions and deletions were found in them.The average content of A,T,G and C was 24.5%,30.6%,18.8%,and 26.1%,respectively.In Cytb sequences,26 polymorphic sites and 11 haplotypes were defined,and 4 transition loci and 3 transversion loci were found.The average content of A,T,G and C was 24.9%,28.3%,14.8% and 32.0%,respectively.The mean haplotype diversity(Hd),nucleotide diversity(Pi),and the average number of nucleotide difference(K)in COⅠ and Cytb sequences were 0.795,0.008 83,5.667 and 0.770,0.003 54,4.025,respectively.The results suggested that both COⅠ and Cytb gene showed high level of genetic diversity in O.fasciatus.These results provide basic information for the genetic resource protection and phylogenetic study of this species.