Objective: To establish the HPLC fingerprint of five Fritillaria species according to the low-polarity for the identification. Method: Samples was prepared with static three-phase extraction, HPLC was used the gradient eluted solvert system composed of CH3CN-0.1%H3PO4, the flow rate was 1.0 mL·min-1, the detection wavelength was 250 nm. The HPLC fingerprints were evaluated by similarity evaluation system. Result: Published the fingerprints of five Fritillaria species, determined 16 common peaks and special peaks of five Fritillaria species. The result of similarity indicated that differences exist in five Fritillaries species. Conclusion: The established HPLC fingerprint has desirable accuracy, repeatability and stability, it can be used for one of the quality control of Fritillaria species.