On the basis of the meteorological observation data and remote sensing data over the Taihu Lake and its surrounding areas during 2003 to 2013, combined with the WRF3.5.1 simulations, the relationships between the cyanobacteria blooms in Taihu Lake and surface wind speeds were analyzed. The results show that cyanobacteria blooms mainly occurred in the period of the weak wind speed about 0.5~3.4m/s, about six hours earlier than the MODIS satellite overpass time in Taihu Lake, which accounts for 94.7% of all cyanobacteria blooms events. As the area of cyanobacteria blooms decreasing with the wind speed strengthening, a large bloom of cyanobacteria bloom mainly occurred 6 hours ahead with the average wind speed less than 2m/s, accounting for 89%. In addition, the wind direction mainly affects the spatial patterns of cyanobacteria blooms in Taihu Lake. All these results suggest that the wind patterns play an important role on the formation, drifting and distribution of cyanobacteria blooms.