Under the essential framework of the “New Pathway” educational reform in Peking University Health Science Center (PUHSC), the new curriculum system of Medical Microbiology with a “3+1” polyphasic module has been established, composed of the original core module, the innovative module based on problem-based learning and comprehensive experiments, and the complement module including elective courses and seminars, as well as “Student Innovative Talent Project” rooted in the platform of research laboratory. Hope this work would benefit to promote Medical Microbiology educational reform and cultivate innovative talents.