Abstract:Project-based learning is a kind of student-centered teaching mode, which advocate active and interrogative learning. In order to improve the integral systematicness of Environmental Engineering Microbiology experiment courses, enhance the scientific research, the researching experiment program has been carried on which was based on the project-based learning. The experimental design, implementation, evaluation and other issues were discussed and summarized. In conclusion, this kind of teaching mode could encourage students to form a systemic understanding of environmental microbiology research, promote the ability of autonomous learning and cultivate the scientific spirit of exploration. The teaching effectiveness has been improved obviously by such kind of teaching practice.