The mineral surface chemistry characterization is essential to describe the dissolution kinetics in leaching and bioleaching. Five different methods, including X-ray diffraction (XRD), Scanning Electron Microscopy (SEM), Energy-Dispersive X-ray Spectroscopy (EDS), Fourier Transform Infrared Spectroscopy (FTIR) and Raman Spectroscopy, have been applied to study the surface chemistry changes during pyrite, sphalerite and molybdenite bioleaching. The surface characterizations have been done for samples before and after biological and chemical leaching. The SEM images illustrated that the minerals surfaces were smooth before processing, while they covered with an ash layer after biological treatment. Although EDS analysis and Raman spectrum demonstrated the potassium jarosite formation on the pyrite surface during bioleaching, the formation of jarosite layer did not occur on the sphalerite surfaces during bioleaching. On the other hand, a sulfur layer formation on the sphalerite surface was confirmed by mentioned characterization methods. Finally, according to the XRD and EDS spectrum the molybdenite surface had been covered both with sulfur and jarosite.