The effect of the magnetic field on denitrification process in immobilized bacteria particles was investigated in this study. The magnetic field could enhance the denitrification efficiency, especially for wastewater with low C/N ratios, and the average removal efficiencies of NO3 --N increased by 6.58%. High-throughput sequencing analysis revealed that the magnetic field had substantial impacts on the stability of microbial community structure and relative abundance in immobilized bacteria particles, which was beneficial for the stability of denitrifying bacteria. Through the research in this paper, we suggest that magnetic field can be used to improve the denitrification performance of immobilized bacteria particles in the wastewater treatment industry.