In order to explore the effect of bacteria carried by manure on soil microorganisms, and to determine whether the history of manure application has affected the response of soil microorganisms to manure application. Taking the soil with long-term application of pig manure and long-term application of chemical fertilizer as the research objects, manure and sterilized manure were added to these soils. CFU number of the culturable bacteria, abundance of 16S-rRNA gene, bacterial community composition and microbial thermal metabolic activity were measured. When pig manure was applied as 9.0t/hm², the fecal bacteria and chemical nutrients carried by manure had no significant effect on the CFU number of culturable bacteria and 16S-rRNA copies in both soils. In addition, the soil indigenous microorganisms could significantly inhibit the colonization of exogenous bacteria carried by manure; if the indigenous microorganisms in these two soils had sterilized and pig manure was added, the average number of culturable bacteria would increase by 45 and 96 times respectively. Nutrients input from manure did not cause significant changes in soil bacterial community structure and abundance; while exogenous fecal bacteria imported from manure could colonize in the soil with long-term application of chemical fertilizer and affect the corresponding bacterial abundance. However, less fecal bacteria colonize in the soil with long-term application of pig manure, they were inhibited in the early stages of soil entry. Similarly, the addition of manure increased the microbial metabolic activity of the long-term chemical fertilizer application soil, but had no significant effect on the long-term manure application soil. In summary, manure has a greater impact on bacteria community in the soil with long-term application of chemical fertilizer, while the history of long-term application of manure reduces the "sensitivity" of the soil to manure, and enhances the inhibitory effect on the exogenous bacteria carried by manure.