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A lab-scale flat sheet membrane bioreactor (MBR) system was used for the treatment of piggery wastewater to produce an effluent with the appropriate ratio of nitrite:ammonia (1:1 to 1:1.3) as a pre-treatment for the anammox process. The feed wastewater, which was the effluent of a biogas digester, contained 253±49 (n=60) mg.l-1 as COD, 231±18 mg.l-1 as N-ammonia, 223±19 mg.l-1 as total Kjeldalh nitrogen (TKN), alkalinity of 1433±153 mg.l-1 as CaCO3, and pH=7.5±0.3. This study aimed to determine the suitable hydraulic retention time (HRT) and alkalinity to yield the appropriate influent for the annamox process. The results showed that the suitable effluent of the partial nitrification with ratio of nitrite:ammonia 1.0:1.1 at HRT of 7h30, equivalent to total nitrogen loading of 0.77 kgNm-3d-1. The nitrite accumulation rate (NAR) was 82% at HRT of 7h30, whereas NAR were 11 and 63% at HRT of 12h30 and 8h45, respectively, due to the high growth of nitrite oxidation bacteria (NOB) at long HRTs. As increasing alkalinity of up to 1600 mg.l-1 and pH of 8.0 at HRT of 8h45, NAR was increased from 63 to 73%, ratio of ammonia:nitrite reduced from 1.0:1.8 to 1.0:1.6 and free ammonia concentration reached to 20.2 mg.l-1 nitrogen. This shows that the increase of alkalinity inhibited strongly NOB.