Background From the point of view of systems biology, the plant is considered a super organism that consists of the plant per se and numerous populations of pro-and eukaryotic microbial organisms. Each plant species hosts a genotype-specific core microbiome, dynamically responding to environmental cues, such as soil quality. In the plant endosphere, microbial organisms are an indispensable part of the information processing system, and the plant-endophyte interrelationships result in mutual adjustments through this system. Within the plant tissue