To compare the microcalorimetric fingerprint profiles of Lonicerae japonicae Flos (Lj.F) and Lonicerae Flos (L.F), microcalormietry was applied to find the heat change regularity of Bacillus shigae (B.  shigae) metabolism affected by Lj.F and L.F (we choose Lonicera macranthoides Hand.– Mazz in this paper) with different concentrations.  The thermogenic curves and thermodynamics parameters were investigated as evaluation index, and then the date of experiment was studied by similarity analysis.  All the results indicated that the Lj.F and Lonicera macranthoides Hand.– Mazz (L.m.H-M) significantly impacted the microbial growth and had good similarity in its inhibitory activities.  The combination approach of chemical analysis with bioassay was developed and employed to ensure the safety and efficacy of Chinese herbal medicines.