Purpose:Microcystis aeruginosa often threaten human health and safety for the toxin and unpleasant odor and removal difficulties during water treatment process. In order to remove it, a novel method high energy was studied in this research.Materials and methods: The electron beam generated by an accelerator was applied to irradiate M. aeruginosa at various doses of 1, 2, 3, 4 and 5 kGy. The effects of irradiation on M. aeruginosa characteristics and mechanism have been researched through surveying the changes in pH and conductivity, changes of algae cell community structure and respiration rate, and changes of protein and exopolysaccharides production were also detected.Result: The data showed that exposure to 2-5 kGy radiation could make pH decrease. Microcystis aeruginosa increased through its own photosynthesis and physiological regulation. The increasing damage to algal cells led to the exosmosis of the contents, which increased the electrical conductivity of algae liquid and decreased the area of algae cells colony. 2-5 kGy irradiation decreased protein content and destroy the antioxidant system and thus reduced the secretion of extracellular polysaccharidesConclusions: 2-5 kGy radiation could control the algae growth and produced obvious effect. The respiration rate decreased obviously that made M. aeruginosa lose activity in a short time. The results proved that irradiation could change the algae growth and affect its life characteristic efficiently in a short time.