The relevance of the problem is determined by the need for organic production of high-quality soybean seeds and increasing the level of biosecurity in agrocenoses. The purpose of the study is to determine effective strategies for controlling the mycelial structures of necrotrophic micromycetes in agrocenoses of soybean varieties Suzir'ya, Vyshyvanka and Kent during the growing season of plants. The work used greenhouse, field and laboratory methods of agroecosystem biocontrol, as well as analytical, comparative and experimental methods. The prevalence and frequency of occurrence of phytopathogenic micromycetes - pathogens of diseases of seeds, vegetative organs and the rhizosphere of soybean plants were determined. The effect of the biological preparations Mycohelp and Phytohelp on the main ecological and trophic groups of microorganisms in the soybean rhizosphere has been established. It has been established that the antifungal activity of exometabolites of soybean plants depends on the bacterial signaling that underlies the biological preparations Phytocid, Mycohelp and Phytohelp. This affects the activity of root exometabolites that control the population of phytopathogenic micromycetes. Soybean plants of the Vyshyvanka, Suzir'ya and Kent varieties, interacting with microorganisms that are part of the biological preparations Mycohelp and Phytocid, produce root exometabolites that differ significantly in their effect on the radial growth rate of the mycelium of the phytopathogenic micromycetes. Root exometabolites of the Suzir'ya and Vyshyvanka soybean varieties exhibit antifungal properties. They are able to inhibit the growth and development of the mycelium F. solani and F. keratoplasticum. The antifungal effect of plant exometabolites is significantly enhanced when they interact with biological products. This effect is controlled by the antifungal activity of soybean root exometabolites, which depends on the signaling of bacteria that form the basis of biological products. The results obtained make it possible to reduce the number of chemical protection agents in agrocenoses, thereby contributing to an increase in biodiversity, restoration of microbial balance in agrophytocenoses, reduction of cost and improvement of quality of plant raw materials.