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MIKE SHE is a physically based, integrated water resources model that simulates both surface and subsurface water dynamics. These dynamics include interception, evapotranspiration, overland flow, channel flow, unsaturated flow, and saturated zone flow. The model can also simulate limited surface water quality processes using the advection dispersion equation and groundwater quality with a random-walk tracking method. This article is intended to describe the components of MIKE SHE and its calibration, validation, and applications. Given the deterministic, physically based characteristics of MIKE SHE and the large number of processes it simulates simultaneously, the number of parameters to calibrate can be large. A combination of user experience with the model, knowledge of the problem being solved, and an automatic calibration feature help in selecting the most sensitive parameters to calibrate. A case study describing the use of the MIKE SHE model, coupled with the hydraulic MIKE 11 model, to solve water flow in agricultural reservoirs in south Florida is presented. The problem required the use of the MIKE SHE model due to the high groundwater and overland flow interactions as well as the complex flow patterns inside the reservoir. The horizontal and vertical saturated hydraulic conductivities and the leakage coefficient were identified as the calibration parameters. The model was calibrated and evaluated for two reservoirs using two different time periods. Results showed matching between measured and simulated data for both reservoirs for the calibration and validation periods. The coupled MIKE SHE/MIKE 11 model has the capabilities to simulate complex hydrological processes and their interactions, which few other watershed models can match, and is suitable for current problems, such as the effects of climate change and land use change. [ABSTRACT FROM AUTHOR]