In order to study the effects of zinc, iron, and manganese fertilizers on the micronutrients in roots and shoots of soybean, a pot experiment was done at 2010. The experimental design was a 3×3×3 factorial experiment based on Randomized Complete Block with three replicates. Treatments included of three rates of Zinc, iron, and manganese. After eight weeks, plants were lifted, dried, incinerated and were used to measure the micronutrients. The results were shown that Zinc application significant effects on Zn, Fe concentration in roots (P<0.01), and Zn, Fe and Mn concentration in shoots (P<0.01). Fe concentration in roots and shoots increased in 4 mgkg-1 soil application of iron, and in excess amounts, concentration of this element was decreased. Mn concentration in roots was not affected by zinc application. Iron application had no significantly effect on Zn concentration in shoots. In our study, antagonistic effects of iron and zinc were observed.