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Surface sediment samples were collected from 19 sites throughout Daya Bay, China, to study the concentrations, and spatial distributions of different fractions of phosphorus through sequential extraction methods. Like many coastal and marine areas, De-P was the dominant form of P, contributing 47.5% of TP, followed by O-P, contributing 25.5% of TP. Ex-P and Fe-P contribute the lowest to TP. The concentration of sedimentary TP ranged from 290.3~525.1 µg/g, with the average of 395.3 µg/g, which was a similar range to other estuaries and coastal areas. Based on the spatial distribution, Pearson correlation and Principal component analysis, different fractions of phosphorus showed different spatial distributions due to different sources. The molar ratio of organic carbon to phosphorus (TOC/O-P) ranged from 199 to 609, with the average of 413, which was much higher than the Redfield ratio, suggesting terrestrial sources of organic matter in Daya Bay surface sediment. The average bioavailable phosphorus was 149.6 µg/g and contributed 37.8% (24.6~56.0%) of TP, indicating that the surface sediments of Day Bay act as an important internal source of P.