[Objective] T his study aimed to investigate the diversity of community composition and diversity of endophytic bacteria in Anoectochilus roxburghii.[Method]By using Illumina MiSeq high-throughput sequencing technology,the 16S rDNA-V4 region of endophytic bacteria in A. roxburghii was sequenced. Qiime and Mothur software packages were used to sort and count the number of sequences and operational taxonomic units(OTUs) and analyze the species abundance and distribution,Alpha diversity and differences of species abundance among samples. [Result] The number of effective sequences / OTUs for each sample was110485 /247(stem) and 98524 /259(leaf),respectively. The rarefaction curve showed that adequate sampling was performed. The number of OTUs had almost reached a saturation point. Endophytic bacteria in A. roxburghii mainly belonged to the genera Acidovorax,Pseudomonas,Sphingomonas and Halomonas. [Conclusions]Illumina MiSeq high-throughput sequencing technology provides more accurate and scientific data resources for the study of endophytic bacteria in A.roxburghii. [Objective] T his study aimed to investigate the diversity of community composition and diversity of endophytic bacteria in Anoectochilus roxburghii. [Method] By using Illumina MiSeq high-throughput sequencing technology, the 16S rDNA-V4 region of endophytic bacteria in A. roxburghii was sequenced. Qiime and Mothur software packages were used to sort and count the number of sequences and operational taxonomic units (OTUs) and analyze the species abundance and distribution, Alpha diversity and differences of species abundance among samples. [Result] The number of effective sequences The rarefaction curve showed that adequate sampling was performed. The number of OTUs had almost reached a saturation point. Endophytic bacteria in A. roxburghii mainly belonged to the genera Acidovorax, Pseudomonas, Sphingomonas and Halomonas. [Conclusions] Illumina MiSeq high-throughput sequencing technologies provide more accurate and s cientific data resources for the study of endophytic bacteria in A. roxburghii.