Abstract: 30 Luxi and 30 Bohai Black individuals were genotyped with 12 microsatellites. The efficiencies of individual identification among phylogenetic tree analysis， maximum likelihood and Bayes approach were compared. The results showed that the individual identification accuracy rates were 100% for 3 methods using 12 microsatellites and 6 low heterozygosity microsatellites. By using 6 high heterozygosity microsatellites，the accuracy rates were 83.33%，76.67% and 71.67% for Bayes approach，maximum likelihood and phylogenetic tree analysis，respectively. All of these indicated that Bayes approach maybe the most accuracy and should be the first choice in individual identification research，and the maximum likelihood and phylogenetic tree analysis could be the complementary methods.