The aim of this study was to identify genes associated with resistance to major viral diseases and late blight in potato hybrids for subsequent use in potato breeding and seed production programs. Marker-assisted selection (MAS) using DNA markers facilitates the selection of crop plants with comprehensive disease and pest resistance. This method is widely used to accelerate the selection of resistant varieties with good agronomic characteristics. Potato hybrids selected for molecular genetic screening were previously evaluated in the field for resistance to phytopathogens in accordance with potato breeding recommendations. The potato hybrids were obtained from the breeding nursery of the Vladikavkaz Scientific Center of the Russian Academy of Sciences. The following molecular DNA markers were used for molecular screening of potato genotypes: YES3-3A, RYSC3, Ry186, M45, M6, 5Rx1, R1-1205, and R3b-378. These markers allow us to identify the presence of virus- (PVY, PVX) and late blight resistance genes in the genomes of hybrid varieties. As a result of the analysis of resistance to phytopathogens, hybrids were isolated that will be used in the future development of new virus-resistant potato varieties.