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In this study, the Soil and Water Assessment Tool SWAT was extended with algorithms from a detailed nitrogen turnover model to enhance the model performance with regard to the prediction of nitrogen leaching. The new model, which is further referred to as SWAT-N, includes algorithms for decomposition, growth of nitrifying bacteria, nitrification, nitrificatory as well as denitrificatory N-emissions, N-uptake by plants and N transport due to water fluxes. The model was tested with a lysimeter dataset of a long term fertilisation experiment including crop rotation conducted in Eastern Germany. A regression-based global sensitivity analysis was employed to test the impact of the new implemented parameters on the sensitivity of various model output variables. The rate coefficient for decomposition, the pH-value, and the porous fraction from which anions are excluded were identified as the most important parameters controlling nitrogen leaching and gaseous nitrogen emissions. A generalised likelihood uncertainty estimation GLUE was conducted afterwards to calculate conditioned prediction intervals for each simulated time step. A maximum model efficiency after Nash, J.E., Sutcliffe, J.V., 1970. River flow forecasting through conceptual models. Part 1. A discussion of principles. J. Hydrol. 10, 282-290 of 0.4 could be achieved for the simulation of monthly nitrogen leaching. It is concluded, that the implemented algorithms enhance the model performance of SWAT, since the previous SWAT version failed to accurately simulate nitrogen leaching at the investigated site. C 2006 Elsevier B.V. All rights reserved.