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This study aims to investigated the effect of aeration mode on membrane bioreactors (MBRs) using a self-designed integrated hollow fiber MBR and flat sheet organic MBR for rural greywater treatment. The pollutant removal efficiency, characteristics of activated sludge and mixed liquor, and mechanisms of membrane fouling were systematically analyzed under intermittent aeration and continuous modes. The results indicate that the permeability of MBRs in intermittent aeration mode is higher than that in the continuous aeration mode when operating at the same aeration rate. Due to the higher extracellular polymeric substance (EPS) and soluble microbial product (SMP) concentrations. The removal rates of TN and TP by both MBRs at the intermittent aeration mode were higher than those in the continuous aeration mode due to the difference in the aeration environment. Compared to the flat-sheet organic membrane, the hollow-fiber membrane surface was more likely to form biofilms, which cause biological fouling.The relative abundance of Thermomonas showed a positive correlation with the EPS concentration, indicating that Thermomonas participates in EPS synthesis. This study provides a theoretical basis for evaluating the influence of aeration modes on MBRs,and would be a useful guide for the better control of membrane fouling and treatment of rural greywater.