In order to study the concentration of dissolved greenhouse gas and its influence factors in the surface water of eutrophic lake, the west shore and Zhushan Bay of Lake Taihu were taken as an example. The concentrations of dissolved CH₄ and N₂O in the surface water of 27 sites were determined by using headspace equilibrium method. Results indicated that concentrations of dissolved CH₄ and N₂O in the cyanobacteria blooms accumulated zone were much higher than those from the open lake area, with the highest value of 3.79±0.095 and 0.078±0.003 μmol/L, respectively. The average concentrations of dissolved CH₄ in the cyanobacteria blooms accumulated zone and open lake area were 2.33±1.46 and 0.14±0.059 μmol/L, and N₂O concentration were 0.054±0.024 and 0.023±0.012 μmol/L, respectively. The two greenhouse gases were all over saturated in the study sites, and the saturability of the greenhouse gases in the cyanobacteria blooms accumulated zone was much higher than that from the open lake. Additionally, concentrations of N₂O in the estuaries of inflow rivers were higher than other sites. The results of correlation analysis indicated that the concentrations of dissolved CH₄ and N₂O were significantly and positively correlated with total nitrogen, total phosphorus, ammonium nitrogen and dissolved organic carbon, while the concentrations of the dissolved CH₄ was significantly and negatively correlated with nitrate nitrogen. This study indicated that the littoral zone, especially the cyanobacteria blooms accumulated zone plays a potential role in greenhouse gas emission from water to the atmosphere. Moreover, the occurrence of cyanobacteria blooms may facilitated the production of CH₄ and N₂O, but the driving mechanism and influence factors during this process need further investigations.