Based on discussion and analysis of the multi-source heterogeneity, spatio-temporal correlation and water level dynamic characteristics of Caizi Lake wetland ecological data, a three-domain spatio-temporal data model on the basis of “Layer-Object-State ” was proposed, and the ArcGIS platform was adopted to construct the Caizi Lake wetland ecological database management system. This system has the function of library management, query operation, cartographic generalization and so on. It can intuitively present the response relationship of the wetland habitat, the population number and distribution pattern of overwintering water birds and the habitat selection to water level changes, which provides scientific basis for the optimal operation of different adaptive water levels in Caizi Lake.