Geological conditions of Junggar Basin are analyzed in this study,it is located in the northwest arid areas of China with a vulnerable supergene eco-environment.Based on the relationship between underground water and ecological environment,natural geological conditions are combined to classify ecosystem types in the study area,space-time evolution of its eco-environment in three periods is discussed:1990,2000 and 2009;development and utilization of water resources in Junggar Basin as well as its eco-environment evolution laws are taken to analyze problems brought by eco-environment changes,focusing on the following points:A.decreasing area of permanent glacier in mountainous ecosystem,increasing volume of river runoff,reducing capacity of mountainous ecosystem in conserving water resources;B.decreasing underground water,overflowing belt shifting northwards;C.shrinking lake area;D.degrading natural vegetation;E.expanding area of cultivated land and construction land;F.more cultivated land influenced by salinization,showing an increasing trend between 1990 and 2000,maintaining stable between 2000 and 2009,which implies that traditional agricultural irrigation method has brought significant influence on the utilization of water resources,and resulted in the shifting area of salinization.