Plants and microorganisms can form parasitic, alternate or symbiotic relationships, which have an important impact on the yield and quality of medicinal herbs. This topic proposed to explore of Gastrodiae Rhizoma interactions microbes, covering planting soil microbial community diversity and the role of endophytic bacteria, the characteristic of Armillaria mellea growth and the analysis tools for its phenotype, optimization of germination bacteria and other research aspects, in order to clarify the effects of fungi and other organisms during the cultivation of Gastrodiae Rhizoma.