Three isolates were isolated from edamame soybean nodules and characterized as indigenous Rhizobium sp. compatible with Edamame soybean, showing the potential to be developed as an inoculum for biological fertilizers that can increase the efficiency of nitrogen fertilizers. All isolates grew on YMA+ Congo Red medium, with colony characteristics of a circular shape, pink color, 1-3 mm in diameter with convex elevation, and slightly translucent (Opaque). The results of microscopic characterization showed that the bacilli-shaped cells were gram-negative. The growth curve showed that all isolates could grow optimally after 48 hours of culture. Physiologically, the three isolates were aerobic and catalase-producing bacteria. The re-inoculation of these Rhizobium isolates on edamame seeds proved its compatibility indicated by effective nodule formation up to 48.03-66.23%.