Abstract:In this study，the differences in metabolism，composition，and function between the functional Cordyceps militaris and common Cordyceps militaris were explored.The metabolites of the two species were determined by liquid chromatography-mass spectrometry and multivariate statistical analysis.To detect the differences metabolites 69 kinds，the fatty acid，benzene，and replace the derivatives were，glycerides，carboxylic acid and derivatives，indole and derivatives，purine nucleoside，carboxylic acid and derivatives，steroids and derivatives，carboxylic acid and regulator，phenolic acids and cyclic ether phenolic acid glycerides ten classes，such as material，and 23 species of unknown metabolites to classification.The following metabolites were isolated from the functional Cordyceps militaris：adenosine，α-linenyl ethanolamide，L-histidine，（-）-riboflavin，1-hexadecanoyl-2-sn-glycero-3-phosphate，9-oxo-10E，12Z-octadecadienoic acid，9，10-dihydroxy-12Z-octadecenoic acid，and 1，2-benzenedicarboxylic acid，bis（2-methylpropyl）ester.The results indicated that functional Cordyceps militaris contained higher concentrations of the most significant differential metabolites and active components than common wheat Cordyceps militaris，which indicated that this research had broad research prospects and application value.