This study investigated two wildtype green algae, Micractinium sp. and Chlorella sp., for their growth in high nitrogen wastewater (mixture of sludge centrate and primary effluent wastewater) and subsequent anaerobic digestion under mesophilic conditions. Extraction and analysis of extracellular polymeric substances (EPS) in both algal species during cultivation showed that Micractinium generated larger quantity of EPS-proteins than Chlorella. Anaerobic digestion of harvested algae showed the opposite trend that Chlorella allowed a higher CH4 yield on the volatile solids fed the digester (VSfed) of 230 dm3 kg−1 than Micractinium (209 dm3 kg−1). These results suggested that different growth patterns of two types of algae, with different quantity of EPS expressed, affected anaerobic digestibility and biogas yield. Co-digestion of algae with waste activated sludge (WAS) improved the volatile solids reduction, hydrolysis efficiency as well as the biogas yields of algae.