The biogenic elements concentrations in a coastal bay/estuary are strongly influenced not only by riverine input but also by submarine groundwater discharge (SGD) which has been identified as a typical process of land/ocean interactions in coastal zones. To assess the role of SGD in nutrient fluxes in the Southern Yellow Sea (SYS), 228Ra activities were measured in seawater collected in May 2014. Analyzing the sources and sinks of 228Ra, the flux of excess 228Ra through SGD was estimated to be (2.2 ± 1.0) ×1015 dpm yr−1. Based on the 228Ra mass balance model, we estimated the average SGD flux to be approximately (1.3 ± 0.87) ×1012 m3 yr−1 over the entire SYS, which is at least 3.3 times the estimated annual delivery from the Changjiang River into the SYS (∼1.3 × 1011 m3 yr−1). The SGD‐derived biogenic elements loads (dissolved inorganic nitrogen (DIN), phosphorus (DIP) and silicon (DSi)) were estimated as (487 ± 384) × 109 mol yr−1, (2.8 ± 2.2) × 109 mol yr−1, and (313 ± 259) × 109 mol yr−1, respectively, which are approximately 18 times, 7 times and 13 times the riverine input from both mainland China and Korea. The accumulation nutrient fluxes derived by SGD may play one of the most important roles in the green tide bloom that originated from the Subei Shoal zone in the SYS. Additionally, DIN and DIP via SGD can provide the necessary amounts of nutrient for recovering nutrient concentrations to normal levels after the green tide bloom is terminated.