Soil pollution is a global environmental problem. Nanoscale zero-valent iron (nZVI) as a kind of emerging remedial material is used for contaminated soil, which can quickly and effectively degrade and remove pollutants such as organic halides, nitrates and heavy metals in soil, respectively. However, nZVI and its composites can enter the soil environment in the application process, affect the physical and chemical properties of the soil, be absorbed by microorganisms and affect the growth and metabolism of microorganisms, thus affecting the ecological environment of the entire soil. Because of the potential risks of nZVI to the environment and ecosystems, this paper summarizes the current application of nZVI in the remediation of contaminated soil environments, summarizes the various factors affecting the toxic effects of nZVI particles and comprehensively analyzes the toxic effects of nZVI on microorganisms, toxic mechanisms and cell defense behaviors to provide a theoretical reference for subsequent biosafety research on nZVI.