Morchella is a kind of medicinal and edible homologous fungia that is rich in multiple metabolites. The metabolites from Morchella are a kind of essential substance because of their biological activities. In this study, Morchella fruit bodies and mycelium were selected to identify their metabolites. The primary metabolites of the two experimental group were analyzed using a method of widely targeted metabolome based on UPLC-ESI-MS/MS. A total of 354 different metabolites, including 188 upregulated metabolites and 166 downregulated metabolites, were characterized. Further, the main 20 metabolic pathways of the metabolites were analyzed. The rst 9 ones are tyrosine metabolites, thyroid hormone biosynthetic pathway, phenylalanine metabolites, linoleic metabolites synthetic pathway, glycerophosphate metabolic pathway, choline in tumors, methyl butyl metabolites, arginine synthetic pathway, arginine, arginine and proline metabolites. This study provides theoretical basis for the analysis of metabolic pathway of Morchella fruit bodies and mycelium that serving for further research of their medicinal mechanism and effective components.