Abstract: Some toxic metabolites were produced during the process of food fermentation,which caused safety problems to fermented food. As a new technology,metabolomics can analyze and monitor small molecule metabolites of biological metabolism in real time. Technologies of gas chromatogram- mass spectrometry( GC-MS),ion chromatography( IC),reversed- phase high performance liquid chromatography( RP- HPLC),HPLC- MS / MS and liquid chromatography- high resolution time of flight mass spectrometer( LC- ESI- TOFMS)were used to analyze toxic metabolites in food such as alcoholic beverage,wine,cheese,sausage,soybean sauce. The formation and changes of ethyl carbamate,biogenic amine and nitrite were analyzed at different fermentation period.It can provide references for increasing the safety of fermented food and promoting application in the field of fermented food.