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In this work, Magnetic Fe3O4@MCM-41/CuO nanocomposite was preparation of iron oxide magnetite nanoparticles and development of MCM-41 mesoporous shells on the surface of iron oxide magnetite after Fe3O4@MCM-41 was organofunctionalized and finally formation CuO shells with thickness ~ 25-30 nm in the surface of Fe3O4@MCM-41-NH2 core-shell. The properties of prepared magnetic core-shell were characterized by transmission electron microscopy (TEM), X-ray diffraction (XRD), nitrogen adsorption–desorption measurement and vibration sample magnetometer (VSM). The applicability of the synthesized core-shell was tested as an antimicrobial agent against gram-positive and gram-negative bacteria. It was showed that the Fe3O4@MCM-41@CuO act as an ideal antimicrobial agent in compared with that of the pure copper oxide and Fe3O4@CuO.