Abstract: Objective To investigate the changes in the population and distribution intestinal microflora and their relationship with depression in post-stroke patients. Method Fecal specimens were obtained from 32 patients with post-stroke depression and 30 healthy adults for gene sequencing of 16S RNA V3 region of the intestinal microorganism using Roche/45 high-throughput sequencing platform. Results The genus and species of intestinal bacteria showed significant differences between the post-stroke patients and health adults. Conclusion Significant changes in the structure of intestinal flora occur in patients with post-stroke depression.