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Using static chamber-GC techniques, the short-term effects of nitrogen input on the emission fluxes of CH4 and N2O from a Cyperus malaccensis wetland were determined. The results showed that the emission of CH4 was increased by high nitrogen input at all sampling times, whereas the low nitrogen input exhibited different variation characteristics at different time points. Compared to the control treatment, the CH4 emission flux in the two nitrogen input treatments (N1, N2) was increased by -44.35%-1 057.35% and 7.15%-667.37%, respectively. The input of exogenous nitrogen had positive priming effect on N2O emission flux within 24 hours, increased by up to 171.60 folds and 177.79 folds, respectively. After 8 days, the priming effect by the nitrogen input weakened or disappeared. There was no significant effect of nitrogen input on the Ec, pH and Eh of soil at different depths in the salt marsh during the experiment. In the control treatment, the CH4 emission flux was negatively correlated solely with Eh of soil at 5 cm depth, whereas in the N1 treatment, it was negatively correlated solely with soil temperature at 10 cm depth. In the N2 treatment, there was negative correlation between the CH4 emission flux and Ec of soil at 5cm depth, pH of soil at 0, 5 cm depths, and Eh of soil at 0, 5, 10 cm depths. However, no significant correlation between the N2O emission flux and the environmental variables in the wetland was found. This study indicated that the temporal variability should be taken into consideration when examining the effects of nitrogen input on the emission of greenhouse gases in the wetlands.