Object To compare the HPLC fingerprints of Flos Chrysanthemi from different habitats Methods With Inertsil C 18 column, gradient elute was performed by mobil phase containing acetonitrile water (2% tetrahydrofuran, 0 1% trifluoracetic acid) The flow rate was 1 mL/min and column temperature 30 ℃ Different breeds of Flos Chrysanthemi from various producing areas and other species from the same genus were comparatively analyzed Results It is discovered that the HPLC fingerprints from different breeds of Flos Chrysanthemi have a strong comparability They have 16 mutual peaks and among them four are from the ten strongest peaks, two from the ten strongest peaks or stronger peaks The fingerprint data reflect the affiliation on producing area and genetic relationship of differnt breeds of Flos Chrysanthemi, and also characteristic features of each breed Conclusion This method can be used to establish the HPLC fingerprints of different breeds produced in different areas