Abstract:The microbial community analysis from Mongolian Jiaokou was carried out in order to provide theoretical basis and beneficial references for establishment of local standards and development of industrial products derived from Jiaokou. The Lactobacillus, Bifidobacterium and Escherichia coli in Jiaokou were counted by culture-dependent method, and their species identification was analyzed by 16S rDNA sequencing. The viable counts of Lactobacillus, Bifidobacterium, and E. coli were 7.91~8.69, 4.09~6.64 and 0~5.45 lg(CFU/mL), respectively. The strains in the samples were classified into 5 genera, of which the dominant strains were Enterococcus faecalis 34.55%, Lactococcus plantarum 25.45% and Lactococcus lactis 16.36%. Mongolian Jiaokou is rich in Lactococcus and Bifidobacterium, however, pollution indicating bacteria (coliforms) is the constraint its industrial production. Mongolian traditional Jiaokou is naturally acid and high-fat, providing a potential wealth of strain resource for the functional probiotics development.