Environmental Engineering Microbiology is a professional basic course of Environmental Engineering and Environmental Science Specialty in university. However, there are some problems in the experimental teaching of Environmental Engineering Microbiology. For example, the contents are backward, the preparing before experiments and even the experiment often goes through the motions, and the effective assessment methods were lack. Therefore, the author reformed the traditional teaching model by introducing the mobile internet into the experimental teaching, encouraging students to participate in the preparation of the experiment. We optimized the teaching content by reworking curriculum, introducing the researchers into the experimental teaching. And we also optimized the assessment methods by calculating the final scores from the performance and lab reports. Those teaching reforms obtain a favourable effect, and this paper described those teaching reforms in detail.