In order to reduce the mineralization of soil organic carbon (SOC) and enhance the ability of soil carbon sequestration. Mn-modified waste dander biochar (Mn-BC) was successfully prepared via impregnation and pyrolysis, and MnSO4 was formed on its surface. Mn-BC increases the carbon retention and reduces the emissions of CO2 and SO2 in way of forming C–O, Mn-O-C bond and MnSO4. At the same time, the stability of the original biochar was reserved due to forming a conjugated structure (C–C and pyridine-N bond), and the carbon sequestration content was increased to 25.63%. Importantly, the application of Mn-BC can directly regulate the transformation of microbial bacterial community and lead to create stable carbon dominant bacteria (Firmicutes). And the mineralization rate of SOC is reduced to 0.48 mg CO2/(g center dot d), together with an increased content of TOC (48.16%), thus the purpose of efficient carbon sequestration is achieved in soil.