A lab-scale membrane bioreactor (MBR) with intermittent aeration was operated to treat the reverse osmosis concentrate derived from coal gasification wastewater. Results showed intermittent aeration represented slight effect on organic matter reduction but significant effect on nitrite and nitrate reduction, with 6 h aeration and 6 h non-aeration, removal efficiencies of organic matter, chloride, sulfate, nitrite and nitrate reached 48.35%, 40.91%, 34.28%, -36.05% and 64.34%, respectively. High-throughput sequencing showed a microorganisms succession from inoculated activated sludge (S1) to activated sludge in MBR (S2) with high salinity. Richness and diversity of microorganisms in S2 was lower than S1 and the community structure of S1 exhibited more even than S2. The most relative abundance of genus in S1 and S2 were unclassified_Desulfarculaceae (9.39%) and Roseibaca (62.1%), respectively. High salinity and intermittent aeration represented different influence on the denitrifying genus, and non-aeration phase provided feasible dissolved oxygen condition for denitrifying genera realizing denitrification. (C) 2017 Elsevier Ltd. All rights reserved.