The present study aimed to characterize silver nanoparticles (AgNPs) and iron oxide NPs (Fe3O4 NPs) synthesized by Bacillus subtilis for their physicochemical properties and antibacterial activities. After producing the silver and iron NPs exploiting bacterial supernatant content and biomass, the size and shape of the NPs were determined by scanning electron microscope (SEM) and spectrophotometery, followed by measuring the antibacterial properties using agar well diffusion method (measuring zone of inhibition (ZOI) diameter) and microdilution method (estimating minimum inhibitory concentration or MIC and minimum bactericidal concentration or MBC) against the standard bacteria of Staphylococcus aureus (PTCC 1112), Bacillus cereus (PTCC 1015), Pseudomonas aeruginosa (PTCC 1074) and Escherichia coli (O157:H7).\n\nAccording to the findings, maximum optical density (OD) for AgNPs and Fe3O4 NPs was read at 435 and 225 nm, respectively, which therefore verified the fabrication of NPs. The shape of AgNPs was spherical with the size range of 25-45 nm, while the Fe3O4 NPs had cubic and spherical shapes and the size range of 55-80nm. The results of antimicrobial potentials indicated that the Ag NPs were more active than the Fe3O4 NPs and that the biomass synthesis method for both NPs exhibited relatively better physicochemical properties and antimicrobial effects than the supernatant method. However, no significant difference was observed between the findings in most cases. There was a significant difference in antimicrobial effects between selected antibiotics and both synthesized NPs (P<0.05). S. aureus and P. aeruginosa were the most sensitive and the most resistant bacteria for both NPs, respectively, so that the MIC value of Ag NPs for S. aureus and P. aeruginosa was 10 and 40μg/ml, respectively and the MBC value was 20 and 80 μg/ml, respectively. The properties reported for the Fe3O4 NPs were weaker than for the Ag NPs, as the MIC value was 20μg/ml for S. aureus and B. cereus, and 40μg/ml for E. coli and P. aeruginosa, as well as the MBC value was 40 and 80 μg/ml, respectively. Given the antimicrobial potential of synthesized NPs, they can be employed as antimicrobial agents in formulations of various disinfectants and antiseptics, because the used materials possess a very high reactivity due to nanoparticle nature and are able to inhibit unwanted microbial growth during a very short time.