Based on multi-temporal remote-sensing images (1990, 2002, 2010) in the Huayang Lakes area, a typical lakes area in Yangtze river basin, we built the Ecosystem Services Value (ESV) assessment model using the equivalent factor method and developed the ecosystem service flow gain-and-loss matrix. Meanwhile, a human activity intensity index (HAI) was introduced and correlated with ESV by bivariate spatial autocorrelation method. The results indicated that:The ESV decreased continuously for 20years mainly resulted from the conversions of water area, tidal-flat area into cultivated land and construction land. From 1990to 2010, the lakeside area showed a massive reduction in ESV. The high ESV areas were distributed mainly in the central and northeastern lake areas because of the returning from farmland to forest in hilly areas. The southern lake areas decreased substantially with the decreased area expanded because of the agricultural bases and new cities construction. The supply and support services functions had been strengthened, conversely, the regulation and cultural services had been weakened. Spatially, human activities intensity was dominated by low-intensity, medium-intensity and medium-high intensity. The low-intensity human activities were mainly distributed around lake areas, with medium-intensity and medium-high intensity interlaced in the northern region and high-intensity in the southern and southwestern regions. According to the bivariate spatial autocorrelation analysis, HAI was discovered to have the significant negative correlation with ESV. Spatial correlation was significant and the degree of spatial agglomeration was relatively high in the study area. The bivariate LISA figures between HAI with ESV showed the high-low clusters located near the south shore of lakes and the low-high groups mainly gathered in the center water area. It is vital to establish the regional differentiated utilization management policies under the principle of ecological and economy coordinated development in this region and even in the whole Yangtze River basin.