Microbiology experiment is an important compulsory course in contemporary life science. In this paper, based on the students’ characteristics in the university for Ethnics and the features of bio-engineering major in our college, we discussed that microbiology experiment teaching system was divided into three types: Basic, Designing and Comprehensive. The principle of experiment teaching was that, with students’ open experiments and teachers’ supplementary assistance, students should fully function as the main body of experiment teaching. By normalizing experiments, cultivating self-learning skills, arousing students’ sense of originality, and students’ appliance capacity could be achieved.