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BMY cattle (1/2 Brahman, 1/4 Murray Grey and 1/4 Yunnan Yellow cattle) has been inter se breeding since 1980s.Genetic diversity of BMY cattle was investigated using 16 microsatellite markers on a large scale.A total of 130 microsatellite alleles and allele size variance in BMY cattle were defined.All of the loci displayed the higher genetic diversity for BMY cattle with overall mean of Na=8.125, PIC=0.7224 and He=0.7666, which were higher compared with many beef breeds and were close to Chinese yellow cattle.It strongly provided the genetic information to match the standards of new beef breed in South China.