Ramie [Boehmeria nivea (L.) Gaud], which are known as “China grass”, which is famous for its excellent fibrous properties, such as high tensile strength, excellent thermal conductivity, silky luster, ventilation, moisture absorption and antibacterial properties. Endophytes can also be beneficial to their host by producing a range of natural products that could be harnessed for potential use in medicine, agriculture or industry. In the study, more than 90% of all ramie plants are grown in China. Research on plant microbiomes has accumulated a large amount of sequencing data and abundant information, indicating the diversity and richness of different microbial communities in the rhizosphere, leaf boundary, seed, and germ layer of many plants. In our study, the population density of endophytic bacteria is the highest in the root tissue, taken together, plant endophyte types are very rich. In addition, they have a special way of survival. Therefore, plant endophyte is more important for the development of medicinal resources. However, on the whole, there are relatively few studies on plant endophytes, and the scope of research is relatively narrow, and plant endophytes have more important scientific significance. Therefore, attention should be paid to their research. This paper expects to provide support for the development of cash crop, especially ramie industry in the future through the sequencing of metagenome.