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Using a multi-disciplinary approach, this paper integrated spatial analysis with agricultural and energy system modelling to assess the impacts of drought on crop water demand, water availability, crop yield, and electricity requirements for irrigation. This was done by a novel spatially-explicit and integrated water-food-energy nexus model, using the spatial climatic data generated by the mesoscale MESAN and STRANG models. In this study, the model was applied to quantify the effects of drought on the Swedish irrigation sector in 2013, a typical drought year, for a specific crop. The results show that drought can severely affect the crop yield if irrigation is not applied, with a peak yield reduction of 18 t/ha, about 50 % loss as compared to the potential yield in irrigated conditions. Accordingly, the water and energy requirements for irrigation to halt the negative drought effects and maintain high yields are significant, with the peaks up to 350 mm and 700 kWh per hectare. The developed model can be used to provide near real-time guidelines for a comprehensive drought management system. The model also has significant potentials for applications in precision agriculture, especially using high-resolution satellite data.