To gain insight into antiseptic effects on the concentrations of CO2, CH4, and N2O in lake water, antisepetic (CuSO4 and HgCl2) were added into water sample, and concentrations of greenhouse gases were measured by the gas chromatography based on water equilibrium method. Experiments were conducted as following: the control group without antisepetic (CK), the treatment group with 1 mL CuSO4 solution (T1), the treatment group with 5 mL CuSO4 solution (T2), and the treatment group with 0.5 mL HgCl2 solution (T3). All groups were divided into two batches: immediately analysis (I), and after 2 days analysis (II). Results showed that CuSO4 and HgCl2 significantly increased CO2 concentration, the mean CO2 concentration (Mco2) of CK (I) and CK (II) were (11.5 +/- 1.47) micromol x L(-1) and (14.38 +/- 1.59) micromol x L(-1), respectively; the Mco2 of T1 (I) and T1 (II) were (376 +/- 70) micromol x L(-1) and (448 +/- 246.83) micromol x L(-1), respectively; the Mco2 of T2 (I) and T2 (II) were (885 +/- 51.53) micromol x L(-1) and (988.83 +/- 101.96) micromol x L(-1), respectively; the Mco2 of T3 (I) and T3 (II) were (287.19 +/- 30.01) micromol x L(-1) and (331.33 +/- 22.06) micromol x L(-1), respectively. The results also showed that there was no difference in CH4 and N2O concentrations among treatments. Water samples should be analyzed as soon as possible after pretreatment. Our findings suggest that adding antiseptic may lead an increase in CO2 concentration.