Monascus species can produce natural edible pigments and many other bioactive metabolites. In this study, mraox gene (Monascus ruber alternative oxidase) was isolated, sequenced, and replaced in order to investigate the function in resistance of conidia to stressful conditions. The derived protein of the mraox gene consisted of 350 amino acids with a conserved ferritin-like diiron-binding domain at the C-terminus, sharing a high homolog with alternative oxidase proteins in other filamentous fungi. Deletion of mraox gene repressed the conidia germination rate (CGR) when conidia were exposed to H2 O2 , high temperature (40 and 50 °C) and alkerline buffer (pH8.0), but CGR of mraox-deleted strain was not decreased when the conidia were treated with NaCl, acid buffer (citric acid-dibasic sodium phosphate buffer, pH3) compared to that of the wild-type strain, suggesting that mraox gene is partially responsible for the resistance of conidia to stressful conditions in M. ruber.