It has been hypothesized that climate change will induce the areal extension of cyanobacterial blooms. However, this hypothesis lacks field-based observation. In the present study both long-term historical data and short-term field measurement were used to identify the importance of changes in wind patterns on the cyanobacterial bloom in Lake Taihu (China), a large, shallow, eutrophic lake located in a subtropical zone. The cyanobacterial bloom mainly composed of Microcystis spp. recurred frequently throughout the year. The regression analysis of multi-year satellite image data extracted by the Floating Algae Index revealed that both the annual mean monthly maximum cyanobacterial bloom area (MMCBA) increased year by year from 2000 to 2011, while the contemporaneous cyanobacterial biomass showed no significant change. However, the correlation analysis shows that MMCBA was negatively correlated with wind speed. Our short-term field measurements indicated that the influence of wind on surface cyanobacterial blooms is that the Chlorophyll-a (Chla) concentration is fully mixing throughout the water column when the wind speed exceed 7ms−1. At lower wind speeds, there was vertical stratification of Chla with high surface concentrations and an increase in bloom area. The regression analysis of wind speed indicates that the climate has changed over the last decade. Lake Taihu has become increasingly calm, with the decrease of strong wind frequency between 2000 and 2011, corresponding to the increase in the MMCBA over time. Therefore, we conclude that changes in wind patterns related to climate change have favored the increase of cyanobacterial blooms in Lake Taihu.