Ancestral information Markers (AIMs) can be utilized for analysis of population genetic structure. In this study, AIMs were selected from Illumina OvineSNP50 chip in blackbone sheep and other eight kinds of Asian sheep populations by Informativeness-statistic defined by Rosenberg. Then subsets of 20, 50, 100, 500 SNPS loci with higher Informativeness value and the corresponding number of random SNP loci were used to infer the population genetic structure, respectively. Principal component analysis(PCA) and fastSTRUCURE methods evaluated AIMs' role in distinguishing the population structure of these 9 Asian sheep population structure. AIMs screened in our study are usefulness in assigning samples to different genetic groups, helping reducing the number of SNPs in sheep genetic researches. The top 50 AIMs can be used effectively to cluster sheep populations into 4 groups, which is consist with the result by the genome-wide SNPs: 1)blackbone group, 2)changthangi and tibetan group; 3)group of banglandeshi, banglandeshiGarole and IndianGarole, 4) group of sumatran, garut and deccani. Alleles Frequncies of AIMs are significantly different among these sheep populations, inferring these markers may be useful in the genetic evolution analysis of these 9 sheep population.