Abstract: In order to reduce the separation and purification cost of natural macromolecular functional protein,a kind of weak anion exchange chromatography medium DEAE-agar gel microsphere was made up. Applied DEAE-agar gel microsphere to the separation and purification of the porphyra haitanensis R-phycoerythrin( R- PE) and spirulina C-phycocyanin( C- PC), optimal elution conditions were as follows : chromatography column specifications was h=35.0 cm,φ=1.0 cm,V=27.5 m L,current velocity v=0.33 m L/min,elution buffer solution was 0.01 mol/L phosphate buffer solution(contain 0.05~0.5 mol/L Na Cl). 0.01 mol/L phosphate buffer solution(contain 0.1 mol/L Na Cl) washed porphyra haitanensis R-PE out,its purity was 5.0. 0.01 mol/L phosphate buffer solution(contain 0.2 mol/L Na Cl) washed spirulina C-PC out,its purity was 4.4. The DEAE-agar gel microspheres could be used in the industrial production of R-PE and C-PC because of their low cost,low energy consumption,scale preparation and excellent separation effect.