Slow-release fertilizers (SRFs) play an essential and necessary role in sustainable agriculture. Using slow-release and environment friendly fertilizers can increase the growth of plants and reduce the loss of nutrients. Considering the deficiency of iron (Fe) and zinc (Zn) in calcareous soils, a slow-release fertilizer was prepared based on the polymeric nanocomposite, which contains NPK, Fe, and Zn. Its potential was evaluated on tomato plant growth by conducting an experiment in a factorial completely randomized design with three replications. Two levels of salinity (2 and 5 ds m−1, two types of soil texture) clay loam and sandy loam) and five levels of fertilizers were examined in the experiment. To this, the graphene oxide-chitosan coated-humic acid@Fe3O4 nanoparticles (Fe3O4@HA@GO-Cs), and the graphene oxide-chitosan coated-ammonium zinc phosphate (AZP@GO-Cs) were used as Fe and Zn sources, respectively. Then, the optimal Fe and Zn fertilizers in the presence of urea, phosphorus, and potassium slow- release fertilizers (SRF) were investigated under greenhouse conditions. The results indicated that the best improvement in growth and nutrient uptake in plants was achieved by using the SRF. Notably, in the shoots of tomato plants, the nitrogen, phosphorus, potassium, Fe, and Zn concentration increased by 44, 66, 46, 75, and 74% compared to the control. The use of nanofertilizer can be an effective, biocompatible, and economical option to provide Fe and Zn demand in plants. [ABSTRACT FROM AUTHOR]