There is a dynamic status carrying on continuously between the infectious bacterial agents and their surroundings. The main target of bacteria is to survive and to develop different mechanisms to overcome the hostile environment and so indirectly related to the public health hazards. One of those methods is to attain resistance genes against wide array of antimicrobial agents along to variant kinds of mineral elements presented by different concentrations. The whole genome sequence of 13 Staphylococcus (Staph) aureus isolates had been obtained and annotated. Visualization of the whole bacterial chromosome would give the chance to mine different kind of bacterial genes, and this study was concerned to look for the resistance genes against the zinc, cobalt and cadmium ions (czc). The number of resistant genes against the zinc, cobalt and cadmium varied between different isolates ranging from 2 to 4 alleles per each genome. Furthermore, the phylogenetic analysis revealed an extraordinary grade of polymorphism between different alleles within the same genome or among different ones. Conclusion: there were variable resistant genes against cobalt (Co), zinc (Zn), and cadmium (Cd) developed by the Staphylococcus aureus isolated from sub-clinical cases of mastitis.