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Abstract: The objectives of the study were to identify principal hydrological pathways and source areas of N and P losses by multi-scale monitoring and to estimate total nutrient losses from the catchment. An agricultural catchment with rain-fed agriculture and irrigated paddy fields in subtropical China was monitored with regularly sampling, together with intensive sampling during and after rain storms. Regular weekly sampling showed that the N concentrations in the overland flows from the upland and paddy fields were higher than those from the streams, but lower than those in the subsurface waters. The N concentration, on average, was 10.0 mg L−1 in the well and 1.7 mg L−1 in the spring water, the former was 10.2 times as high as that in the stream waters (1.0–1.5 mg L−1). Nitrogen and P in the overland flows originated dominantly in particulate forms from the uplands (over 70%) and in dissolved forms from the paddy fields. Inorganic N and P dominated in the streams and subsurface waters. The intensive sampling allowed us to establish flow-nutrient concentration relationships and to extrapolate nutrient losses during rainstorms without regular sampling. The extrapolation increased the estimated nutrient losses by about 30% to 50%. The average total nutrient losses within three water years were estimated as 21 kg N ha−1 yr−1 and 1 kg P ha−1 yr−1, accounting for 9.5% and 1.4% of chemical N and P fertilizers applied to the catchment after subtracting the nutrient inputs with irrigation and rainfall. The estimation showed that paddy fields were as important as the uplands in terms of nutrient losses. These results suggest that control of soil erosion and excessive irrigation could be effective to reduce nutrient export through overland flow and subsurface flow. [Copyright &y& Elsevier]