In natural systems, speciation and migration of heavy metals and radionuclides depend on many factors such as pH, Eh and the presence of microorganisms. Microorganisms (bacteria, yeast, fungi) may have a direct action on the fate of metal ions through biosorption, bioaccumulation or resistance/detoxification processes. Microorganisms may influence the environment by producing mineral acids, chelating agents such as siderophore, or by-products from the metabolism (organic acids ...). In this paper, we report on microbial interaction processes including bioaccumulation, the indirect metal use for microbial life, the interaction with chelating agents, the resistance/detoxification mechanisms and some indirect influences of microorganisms on th...