The invention relates to a soybean slower-growing rhizobium with broad-spectrum nodulation characteristics, application thereof and a composite rhizobium agent prepared from the same, and belongs to the technical field of agricultural microorganisms. In order to solve the problems that the soybean nodule bacteria are low in nodulation rate and poor in nitrogen fixing effect, the invention providesa Japanese Bradyrhizobium japonicum HF25, the preservation number is CGMCC No.14857, the bacterial strain has high matching affinity, nodulation competitiveness and nodulation and nitrogen fixation capacity. The invention further provides the composite rhizobium agent which is prepared from Japanese Bradyrhizobium japonicum HF25 and Klebsiella oxytoca ASP-15, two kinds of bacteria are compounded,and the nodulation and nitrogen fixation capacity is significantly improved; the composite rhizobium agent is applied to soybean planting, compared with soybeans which are not applied with a microbial agent, the number of soybean nodules is increased by 170%, the number of pods per plant is increased by 37.3%, and the hundred-grain weight of soybeans is increased by 5.5%.