In order to explore the effects of plant growth-promoting rhizobacteria(PGPR)on the microbial community diversity in hypocotyl and rhizosphere of vegetable plug seedlings,eggplant variety of'Jingqie No.9',pumpkin variety of 'Chaoren',pepper variety of 'Jingxuan No.1'and three strains of Bacillus amyloliquefaciens L-S60,LPL-117 and L-H15 were used as experimental materials.The microbial community diversity in hypocotyl and rhizosphere of vegetable plug seedlings after inoculation with Bacillus amyloliquefaciens in rhizosphere was analyzed by using Illumina NovaSeq high-throughput sequencing technology and bioinformatics analysis method.The results showed that inoculation of three strains of Bacillus amyloliquefaciens could change the types of hypocotyl and rhizosphere bacterial characteristic sequences of vegetable plug seedlings.α-diversity analysis results showed that Shannon index of pumpkin hypocotyls microorganisms and Chao1 index,Obserbed otus index and Shannon index of pepper rhizospheric microorganisms decreased after inoculating L-S60 in rhizosphere.Chao1 index,Obserbed otus index of hypocotyl microorganisms of eggplant increased after inoculating LPL-117 in rhizosphere,but the Chao1 index,Obserbed otus index and Shannon index of pepper rhizospheric microorganisms decreased.Chao1 index,Obserbed otus index and Shannon index of pepper rhizospheric microorganisms decreased after inoculating L-H15 in rhizosphere.β-diversity analysis results showed that the diversity of bacterial communities in hypocotyl and rhizosphere of three vegetables inoculated with three strains of Bacillus amyloliquefaciens on principal component 1(PC1)was obviously distinguished.It indicated that inoculation of PGPR could affect the structure and composition of microbial community in rhizosphere of vegetable plug seedlings,and three strains of Bacillus amyloliquefaciens could be applied to the rhizosphere of vegetable plug seedlings to improve the microecological environment of rhizosphere of seedlings.