Assessing modern radiolarian distribution in the marginal seas is essential for understanding its relationship to hydrographic and environmental variables, upon which subsequent interpretation of past radiolarian records can be made reliably. Here, we combine published radiolarian assemblages in 69 surface sediments from the Japan Sea with those obtained from 15 new surface sediments in this study to determine the modern distribution of radiolarians. The Tsushima Warm Current (TWC) taxa are only found in the south of the Subpolar Front. The results of redundancy analysis confirm that the temperature at 10 m depth (temperature10m) is the main factor controlling the spatial variability of TWC taxa. The water depth plays a key role in affecting the abundances of Japan Sea Proper Water (JSPW) Assemblage including Larcopyle buetschlii Dreyer (adult), Cycladophora davisiana Ehrenberg, and Actinomma group. The JSPW Assemblage can be used as a reliable indicator of ventilation changes in the Japan Sea. Based on the newly developed TWC taxa and JSPW Assemblage, we further reconstructed the water column structure in the central Japan Sea over the past 25 ka. There was weak ventilation in the central Japan Sea even during the Last Glacial Maximum (LGM), although a distinct decrease in the TWC inflow resulted in surface-water freshening and water column stratification. After the LGM, the TWC taxa together with JSPW Assemblage resumed in the central Japan Sea at the 19 ka meltwater pulse (MWP). The MWP-1A was clearly marked by an enhanced intrusion of the TWC. Synchronously, JSPW was ventilated deeply down after ~14.6 ka attaining to the similar level of the Holocene as a result of changing sea surface conditions. Along with the continuing sea-level rise, the matured TWC entered the Japan Sea at 7 ka and since then the modern hydrographic condition has been established. We suggest that the changes in the sea level and TWC strength predominantly determined the surface hydrography and deep ventilation in the central Japan Sea since 25 ka, and the TWC might have notably affected the Japan Sea since the Bølling-Allerød.
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