Abstract: In recent years, the algae blooms in the Lake Taihu has become an important water pollution event and major water safe problems, aggravated by a factor of climate change.In order to predict the influence of future climate change on the blooms of blue algae in the Lake Taihu, and propose the responding strategy, a research on climate change the corresponding relationship of cyanobacteria habitat was carried out. Based on a lot of measured meteorological data and climate change scenario calculations, the trend on climate change for recent 50's years of the Lake Taihu Basin is obtained with increasing in air temperature, slight decreasing in wind speed, reducing in sunshine time, increasing in rainfall and decreasing in humidity. The main factors of climate change on blue-green algae blooms in Lake Taihu are the variations in air temperature and wind speed. The risk of blue-green algae blooms is rising per 10 years on approximately 2% caused by air temperature increases and every 5 years on about average 3.5% caused by wind speed decreases. Combined with experimental responses of blue-green algae to the sensitive factors, some response measures are suggested including cutting pollution abatement, removing sediment appropriately, blue-green algae salvage, water diversiondrainage, ecological restoration etc.