The results of studies on the resistance control to Septoria tritici with alloplasmic lines of bread winter wheat with 14 cytoplasms. The effect of the Triticum aestivum L nuclear genome on its interactions with the cytoplasms of related species on wheat resistance was found out. Analyzing the obtained resistance evaluation results of the genotypes involved in the pathogen Septoria tritici experiment showed the absence of immune forms under the conditions of the Forest-Steppe of Ukraine. The affection intensity of septoria within the control variants over the years was relatively equal from score 5.0 to 4.0 (average - 4.43). Analyzing the nuclear-plasmon effect and genome-plasmon interaction for resistance to septoria, we found out that different sources of alloplasm and the nuclear genome interact differently and provide different resistance effects to septoria. Two nuclear genomes – Donskaia Poluintensivaia and Myronivs’ka Yuvileina were identified with the highest score (5.0). On average, over the years of study, statistically significant data on the response of different plasmotypes to the septoria phytopathogen elicited high variability in both plasmon and genome. The proportion of the genome (p-level - 4.97-09) compared with plasmon (p-level - 1.35-05), in the trait variability was almost twice as large. Evaluation of the variability level (according to the results of the sum of squares allocation) caused by the study showed that the factor B input (nuclear genome) was 10.7%, and the factor A input (cytoplasm) was 28.1%. The interaction of nuclear and cytoplasmic factors accounts 12.1%, and the share of random deviations - 49.1%.