Abstract: Taking a rice-wheat rotation system in the suburb of Nanjing, Jiangsu Province of East China as test object, this paper studied the fluxes of CH₄ and N₂O and their annual dynamics under different farming managements in 2010-2011, and the field observation data were applied to validate the processbased model, denitrificationdecomposition (DNDC) model, aimed to approach the applicability of the model to this rotation system, and to use this model to simulate the effects of different environmental factors and farming managements on the global warming potentials (GWPs) of CH₄ and N₂O. The results showed that except in the treatment control and during wheat growth season, the simulated cumulative emissions of CH₄ and N₂O from the rotation system in all treatments were basically in coincide with the observed data, the relative deviations being from 7.1% to 26.3%, and thus, the DNDC model could be applied to simulate the GWPs of cumulative emissions of CH₄ and N₂O as affected by various environmental factors or management practices. The sensitivity test showed that the GWPs of CH₄ and N₂O varied significantly with the changes of environmental factors such as the mean annual air temperature, soil bulk density, soil organic carbon, soil texture, and soil pH. Farming managements such as N fertilization, straw returning, and duration of mid-season drainage also had significant effects on the GWPs of CH₄ and N₂O. Therefore, the above-mentioned environmental factors and farming managements should be taken into account to estimate the greenhouse gases emission from the rice-wheat cropping system on site-specific or regional scale.