As years of unreasonable farming practices in agriculture soil damaged seriously. The soil-borne disease and the chemical residue are two serious problems of soil pollution which affect the yield and quality of agricultural products. Ecological remediation of soil is an effective way to resolve these problems and maintain the sustainable development of agriculture . In this paper the agents Bacillus subtilis SY 1 and Pseudomonas flurescens W1 were used to improve the ecosystem function and reduce the disease occurrence.