Abstract: OBJECTIVE To constructed the bio-pharmaceutical industry innovation ecosystem by studying the components of the bio-pharmaceutical industry innovation ecosystem model on the basis of investigation and analysis of Zhejiang’s bio-pharmaceutical industry. METHODS The concept and connotation of bio-pharmaceutical industrial innovation ecosystem was defined, bio-pharmaceutical industrial innovation ecosystem model was built referring to natural ecosystem by using the theory of innovation ecosystem and mapping the structure and characteristics of natural ecosystem. Via a case study of Zhejiang bio-pharmaceutical industry, weakness of bio-pharmaceutical industrial innovation ecosystem was analyzed and suggestions were proposed. RESULTS Two creative material flowing routes were refined which producer-provided knowledge and talents enter the decomposer while avoiding the consumer and products provided by some decomposers with production function were decomposed while avoiding the consumer. Trust was the premise of generating cooperative consciousness, which determined the level of input and contribution of innovation subjects and the efficiency of collaborative innovation among innovation subjects. CONCLUSION This research puts forward system construction countermeasures from six aspects, the ability of innovation source strategy, core enterprise cultivation, subject trust enhancement, government guidance and support, service organization upgrading, and platform expansion, to provide reference for promoting the innovative development of the bio-pharmaceutical industry.