Jujube is the homology of medicine and food, and polyphenols are key compounds that determined the functional effects of jujubes. In this study, characteristic polyphenols in 15 varieties of Chinese jujubes were investigated based on untargeted metabolomics. Result showed a total of 79 characteristic polyphenols were identified in 15 varieties of Chinese jujube, and 55 characteristic polyphenols such as syringetin, spinosin and kaempferol were reported for the first time. Scopoletin (63.94% in LZYZ), pectolinarin (22.63% in HZ) and taxifolin (19.69% in HZ) contributed great and presented significant (p<0.05) differences in 15 varieties of Chinese jujubes. HZ can be characterized by pectolinarin, erianin and wogonoside. While, XSHZ, NYDZ and RQHZ with similar polyphenol profile were characterized by (+)-catechin, combretastatin A4 and tectorigenin. JSBZ, HMDZ, TZ, JCJZ and HPZ had similar polyphenol profile of galangin, isoferulic acid and hydroxysafflor yellow A. In conclusion, metabolomics is critical to grasp the fully nutritional components of jujubes, and the differences of polyphenol profiles and characteristic individual polyphenol of 15 varieties of Chinese jujubes can be well analyzed by principal component analysis (PCA).Jujube is the homology of medicine and food, and polyphenols are key compounds that determined the functional effects of jujubes. In this study, characteristic polyphenols in 15 varieties of Chinese jujubes were investigated based on untargeted metabolomics. Result showed a total of 79 characteristic polyphenols were identified in 15 varieties of Chinese jujube, and 55 characteristic polyphenols such as syringetin, spinosin and kaempferol were reported for the first time. Scopoletin (63.94% in LZYZ), pectolinarin (22.63% in HZ) and taxifolin (19.69% in HZ) contributed great and presented significant (p<0.05) differences in 15 varieties of Chinese jujubes. HZ can be characterized by pectolinarin, erianin and wogonoside. While, XSHZ, NYDZ and RQHZ with similar polyphenol profile were characterized by (+)-catechin, combretastatin A4 and tectorigenin. JSBZ, HMDZ, TZ, JCJZ and HPZ had similar polyphenol profile of galangin, isoferulic acid and hydroxysafflor yellow A. In conclusion, metabolomics is critical to grasp the fully nutritional components of jujubes, and the differences of polyphenol profiles and characteristic individual polyphenol of 15 varieties of Chinese jujubes can be well analyzed by principal component analysis (PCA).