In this research, some Field experiments were performed in order to determine the effect of crop rotation, phosphorus (P) fertilization and tillage on grain yield and grain concentrations of Hg and Cd in durum wheat (Triticum durum L.). Compared to conventional tillage (CT), reduced tillage (RT) management decreased grain Hg and increased grain yield and grain Cd in half of the site-years. The type of preceding crops of spring wheat-flax or canola-flax had little influence. Rate and timing of P application had little effect on grain Hg, but increasing P rate tended to decrease grain Cd. No interactive effect was detected among tested factors. Grain Cd was not related to grain Hg, but positively to other nutrients such as Fe, Mn, P, Ca, K, and Mg. Both grain Cd and Fe correlated positively with grain protein content, suggesting protein may represent a sink for micronutrients. The study suggested that the tillage management may have beneficial effects on both grain yield and quality. Phosphorus fertilizer can remain available for subsequent crops and high annual inputs in the crop sequence may decrease crop grain Cd. Understanding the environment is important in determining the impact of agricultural management on agronomic and nutrient traits.