Globally cultivated cereals are frequently threatened by various plant pathogenic agents such as Fusarium fungi. To combat these pathogens, researchers have made nanoparticles as potential agricultural pesticides. In this study, selenium and titanium dioxide NPs were synthesized using Trichoderma harzianum metabolites. Characterization of the NPs indicated varying size and shapes of both NPs and functional groups existence to constitute both NPs. The evaluation of antifungal activity of NPs against plant pathogenic fungi, Fusarium culmorum, indicated both NPs maximum antifungal activity at concentration of 100mg/L. The impacts of nanoparticles on some beneficial plant growth promoting bacteria (PGPB) were evaluated and showed their inhibition effect on optical density of PGPB at a concentration of 100mg/L but they did not have any impact on nitrogen fixation by bacteria. Existence of TiO2NPs reduced the intensity of color change to pink compared to the control indicating auxin production. Both NPs demonstrated different impact on phosphate solubilization index. This study suggests that the synthesized nanoparticles have the potential to serve as antifungal compounds at special concentration against plant diseases without significantly reducing the potential of PGPB at low concentrations.