The microbiome, a community of microorganisms in the body, is currently used as a biomarker in many disease prognoses. Prevotella, Turicibacte, Bacteroides, Firmicutes/Bacteroidetes are frequently used as a biomarker for rheumatoid arthritis, colorectal cancer, and obesity in ordered. The amount of gut microbiota can be changed depending on various factors such as diet, lifestyle, and exercise. However, there is unclear on how the exercise is really effective to be a disease prevention. The present study aims to investigate the different exercise intensities on gut microbiome abundance changes that could be used as a disease biomarker. Eighteen Sprague-Dawley rats were arranged (n=6 per group) into 3 exercise intensity levels on treadmills including non-exercise group, high -exercise group (20 – 25 m/min for 60 min), and light-exercise group (10 – 15 m/min for 60 min). Rats were weighted every 2 days and stools were collected and preserved in DNA/RNA shield each week. The bacterial 16S rDNA of microbiome in feces samples was sequenced and analyzed. After week eighth of the interventions, from operational taxonomic unit (OTUs) abundance, we found that the relative abundance in bacterial genera in Prevotella and Firmicutes/Bacteroidetes were significantly correlated with the experiment timepoints in different exercise intensities (Pearson’s correlation, P<0.05) compare to other genera. The exercise intensities and exercise durations can affect the relative abundance in the bacteria genus which the abundance genus Prevotella and Firmicutes/Bacteroidetes could be used as a new standard biomarker in exercise as a disease prevention and exercise prescriptions. From the funding limitations, we could conclude the research results based on our data and statistic. Future research should utilize a longer investigation period.