316L stainless steel samples are fabricated by metal injection molding using water-atomized and gas-atomized powder with different oxygen contents. The influences of oxygen on the microstructural evolution and fatigue properties of the samples are investigated. The oxygen tends to react with Mn and Si to form oxide particles during sintering. The oxides hamper the densification process and result in decreased sintered density. Moreover, their existence reduces the Mn and Si dissolving into the base metal and compromises the solution strengthening effect. The oxides lead to stress concentration in the tensile and fatigue tests and become the initiation sites of fatigue cracks. After sintering, the samples made from the gas-atomized powder have a much lower oxygen content compared to those made from the water-atomized powder, therefore, exhibiting much better mechanical properties. The tensile strength, yield strength and the elongation of the samples made from the gas-atomized powder are 560 MPa, 205 MPa, and 58%, respectively. Their fatigue lives are about one order of magnitude longer than the samples made from water-atomized powder, and also longer than those fabricated by powder metallurgy and selective laser sintering which were reported in other studies.