To understand the molecular mechanisms of gonadal development and maturation in penaeid shrimp Marsupenaeus japonicus, eight differentially expressed genes were obtained using a modified annealing control primer system. One of these genes is a proliferating cell nuclear antigen (PCNA). Bioinformatics analyses showed that full-length cDNA of M. japonicus PCNA (mjPCNA) consists of 75 bp of 5' untranslated region, 783 bp of coding region, and 65 bp of 3' untranslated region (excluding the polyA tail), encoding a protein of 260 amino acids with a predicted molecular mass of 28.85 kDa and an isoelectric point of 4.59. Real-time polymerase chain reaction analyses demonstrated that the gene expression level changed significantly in the developing testis and ovary. In stage 1 of ovary and testis, mjPCNA showed its lowest level during development and reached its highest expression level in stage 2 of ovary and testis. In stages 4 and 5 of ovary and the stage 3 of testis, mjPCNA held a steady expression level. Data suggest that PCNA plays an important role in the testis and ovary development, especially in the process of mitosis and meiosis.