The partial nitritation-anammox processes implementation in the main line of wastewater treatment plants would lead them closer to the energy autarky. With this purpose, an integrated fixed film activated sludge (IFAS) reactor was operated at pilot scale. Efficient nitrogen removal (72 ± 11%) was achieved for anaerobically pre-treated municipal wastewater at low temperature (21 – 15 °C), with a nitrogen removal rate of 37 ± 3 g N/(m3·d) at 15 °C. The ammonium oxidizing bacteria were more abundant in the activated sludge, while anammox bacteria were primarily located in biofilm attached onto the carriers surface. Nitrite oxidizing bacteria (NOB) activity was similar between both fractions and its specific activity decreased more than that of other populations when the operating temperature was reduced. Furthermore, the IFAS operational strategy (aerobic/anoxic periods) allowed an efficient NOB activity suppression inside the reactor, which accounted only for the 10 – 20% of the maximum potential activity.