This article presents the results of studies of the quantitative and qualitative composition of the bacterial microflora of the digestive tract of horses with herd maintenance in Yakutia. The results of a bacteriological study of the intestinal contents conducted in horses infected with intestinal worms showed that the normal composition of the intestinal microflora represented by bacteroids, bifidobacteria, lactobacilli, pathogenic and non-pathogenic E. coli, staphylococci and microscopic fungi changes. As the authors of the article point out, helminths in the process of nutrition violate the integrity of the intestinal wall, blood and lymph vessels, which leads to intestinal bleeding, inflammation and necrosis of intestinal tissues, in addition, migrating through the intestinal wall, helminths are able to carry pathogenic microorganisms that cause infectious diseases (salmonellosus equarum, escherichiosis, adenitis equorum, malleus, etc.). The results of bacteriological studies of the intestinal contents of helminth-infected foals under the age of 6-8 months showed an average growth of bifidobacteria, lactobacilli - 4.3±0.2ґ104 CFU/g, MAFAnM - 1.5±0.1ґ105 CFU/g, non-pathogenic staphylococci - 5.7±0.2ґ104 CFU/g, lactose-negative escherichia - 1.7±0.1ґ103 CFU/g. They noted a high level of pathogenic staphylococci - 1.04±0.1ґ106 CFU/g, the absence of lactose-positive escherichia, a single growth of fungi of the genus Aspergillus, Penicillium and intensive growth of mold fungi of the genus Mucor ramosissimus. When examining the intestinal microflora of adult horses, a low level of bifidobacteria and lactobacilli was found - 7.8±0.3ґ103 CFU/g, MAFAnM was 3.08±0.2ґ105 CFU/g, pathogenic staphylococci - 6.8±0.3ґ104 CFU/g, lactose-negative E. coli - 5.4±0.3ґ102 CFU/g, absence of lactose-positive E. coli, moderate growth of fungi of the genus Mucor ramosissimus and Fusarium dimerum, Candida spp., Penicillium spp. and single growth.