In order to investigate the nitrate storage and transport in the karst aquifer system, the hydrochemical dynamics of Qingmuguan underground river system was monitored online by achieving high-resolution data during storm events and monthly data in normal weather. The principal component analysis was employed to analyze the karst water geochemistry. Results showed that nitrate in Jiangjia spring did not share the same source with soluble iron, manganese and aluminum, and exhibited different geochemical behaviors. Nitrate was derived from land surface and infiltrated together with soil water, which was mainly stored in fissure, pore and solution crack of karst unsaturated zone, whereas soluble iron, manganese and aluminum were derived from soil erosion and directly recharged the underground river through sinkholes and shafts. Nitrate transport in the karst aquifer system could be ideally divided into three phases, including input storage, fast output and re-inputting storage. Under similar external conditions, the karstification intensity of vadose zone was the key factor to determine the dynamics of nitrate concentrations in the groundwater during storm events. Nitrate stored in the karst vadose zone was easily released, which would impair the aquatic ecosystem and pose seriously threats to the local health. Thus, to strengthen the management of ecological system, changing the land-use patterns and scientifically applying fertilizer could effectively make a contribution to controlling mass nutrient input from the surface.
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