The effects of nitrogen fertilization or nitrogen deposition on soil greenhouse gases fluxes has been well studied, while little has been piloted about the effects of nitrogen application on soil greenhouse gas fluxes and its discrepancy with different soil organic carbon content. In our study, we conducted field control experiment in a young Eucalyptus plantation in Southeast China. We compared the effects of 4 levels of nitrogen fertilization (Control: 0 kg · hm(-2); Low N: 84.2 kg · hm(-2); Medium N: 166.8 kg · hm(-2); High N: 333.7 kg · hm(-2)) on soil GHGs fluxes from 2 sites (LC and HC) with significantly different soil organic carbon (SOC) content (P < 0.05). The results showed: (1) Fertilization had significant priming effect on CO2 and N2O emission fluxes. One month after fertilization, both CO2 and N2O had the flux peak and decreased gradually, and the difference among the treatments disappeared at the end of the growing season. However, fertilization had no significant effect on CH4 oxidation between the 2 sites. (2) Fertilization and SOC were two crucial factors that had significant effects on CO2 and N2O emission. Fertilization had a significant positive effect on CO2 and N2O emission fluxes (P < 0.001). CH4 oxidation rates decreased with the increasing N addition, but there was no statistical difference (P > 0.05). The CO2 and N2O emission fluxes were significantly higher in HC than those in LC (P < 0.01). (3) Fertilization and SOC had great interactive effect on CO2 and N2O emission (P < 0.05). Compared with fluxes in LC, the fluxes in HC were much more sensitive to N input: low N could remarkably stimulate the CO2 and N2O emission. In conclusion, the effects of nitrogen fertilization on soil GHGs fluxes were not only in connection with the intensify of nitrogen, but also closely tied to the SOC content. When we assess the effects of nitrogen on soil GHGs fluxes, the difference induced by SOC should not be ignored.