This study was investigated to find out the change of reproductive and histological biomarkers of Ruditapes philippinarum exposed to nonylphenol (NP). Experimental period was 16 weeks. Experimental groups were composed of one control condition and three NP exposure conditions (0.05, 0.1, 0.2 mg NP L-1). Gonad index was higher in exposure group than control in female and higher in control than exposure group in male. Intersexuality in the NP exposure group was 14.56% with male exhibiting higher ratio than female. Histological analysis of organ system illustrated expansion of hemolymph sinus, loss of striated border of inner epidermis and degeneration of mucous cell in the mantle. In the gill partially disappearance of frontal and lateral cilia, degeneration of mucous cell were observed. Also, hyperplasia of epithelium and disappearance of striated border were observed in the foot. As the concentration of NP increased, the accumulation of lipofuscin increased in the digestive gland. The results of this study suggest that NP induces reduction of survival rate, histopathology and intersex of R. philippinarum. Furthermore, it is indentified that NP functions as an estrogenic effector on the reproduction of R. philippinarum.