Abstract: In order to reduce the interference of feed liquid to chromatography, reduce the packing load of chromatography, improve the recovery rate of target protein, this paper studied the clarification process of high-density fermentation lysates of streptococcus suis and Haemophilus parasuis Escherichia coli. The recombinant bacteria BL21-HP1036 and BL21-palA were selected, and the protein yield was evaluated by turbidity, and electrophoresis. The results show that: using membrane filtration clear liquid and membrane concentration liquid centrifugation two-step to study the proteins content of BL21-HP1036 and BL21-palA, the protein yield is more than 80%, which could effectively reduce the chromatography interference and improve the recovery rate.