Investigation was made into sediment depth at 723 irregularly scattered measurement points which cover all the regions in Taihu Lake, China. The combination of successive correction scheme and geostatistical method was used to get all the values of recent sediment thickness at the 69×69 grids in the whole lake. The results showed that there is the significant difference in sediment depth between the eastern area and the western region, and most of the sediments are located in the western shore-line and northern regimes but just a little in the center and eastern parts. The notable exception is the patch between the center and Xishan Island where the maximum sediment depth is more than 4.0 m. This sediment distribution pattern is more than likely related to the current circulation pattern induced by the prevailing wind-forcing in Taihu Lake. The numerical simulation of hydrodynamics can strong support the conclusion. Sediment effects on water quality was also studied and the results showed that the concentrations of TP, TN and SS in the western part are obviously larger than those in the eastern regime, which suggested that more nutrients can be released from thicker sediment areas.