A pot experiment under controlled soil moisture conditions was accomplished with the aim to assess the effect of rhizobacteria application Bradyrhizobium japonicum alone or in conjuction with Pseudomonas putida strain on symbiotic system development of soybean in relation to phosphorus and manure fertilization under temporary drought conditions. Mineral and organic fertilizers were applied during filling pots with soil. A half of plants were subjected to moderate drought for 12 days at flowering stage. The experimental results showed that number of nodules increased after rhizobacteria application under mineral as well as under organic fertilization irrespective of soil moisture levels. The highest effect of rhizobacteria was registered in plants under normal irrigation conditions. Experimental data find out that combined application of two rhizobacteria strains displayed synergic effect on nodules development. Thus, the results suggested that application of B. japonicum and Pseudomonas putida strains as biofertilizer contributed to enhance tolerance of soybean plants and promote nodules development under water limited conditions.