The article is devoted to the studies of species composition and distribution of soil fungi in the Kolsay Kolderi National Park, southeast Kazakhstan. During the studies, 91 species of soil micromycetes belonging to 27 genera, 16 families, 9 orders, 7 classes were identified. The genera Penicillium (39 species), Aspergillus (12), Trichoderma (6), and Talaromyces (6) were the most numerous, with 1-4 species found in the remaining genera. The source of the greatest number of fungal species was rhizosphere of Artemisia sp. (28 species) and Rosa spp. (27 fungal species), followed by spruce (Picea schrenkiana) – 21 species, Sorbus tianschanica (19 species), Spiraea hypericifolia – 18 species, Juniperus spp. and Salix spp. – 17 species each. The most significant number of species of soil fungi was obtained from Kolsay, Taldy, Kokzhazyk and Tanbaly gorges. The fungi of Eurotiomycetes and Sordariomycetes classes occupied in Kurmety and Karabulak gorges 100%, Kokzhazyk with Tanbaly – 96%, Kolsay and Kayindy – 95%, Koldenen – 80%, Taldy – 78%, in lateral branches of Kudurga gorge (Botamoynak and Sarybastau) – 71%, Saty – 70%. Metarhizium carneum, Purpureocillium lilacinum, Aspergillus niger, Talaromyces rugulosus, Trichoderma viride were the most common species found in all or most gorges.