Using observations in an applied cruise of the submersible Jiaolong, water characteristics, geostrophic transport, and turbulent mixing in abyssal and hadal zones of the southern Yap Trench were studied. The spatial structures of deep water show that the abyssal water is cold, saline, and oxygen rich. The hadal water has very small changes in potential temperature and potential density, and a little decrease in salinity and obvious decrease in oxygen. The isotherm, isopycnal, and isohaline are depressed in abyss over the central trench. The turbulent mixing is enhanced in the near-bottom zone and the hadal water on the trench slope, especially at the steep slope, the dissipation rate and diff usivity is strong, which weakens the stratifi cation. The geostrophic fl ows move southward in the western region of the trench and northward in the eastern region, indicating cyclonic circulation. In the central region of the trench, the water transport is ~1.74 Sv southward. In the hadal zone, the northward and southward transports are balanced. Our analysis suggests that the abyssal water in the southern Yap Trench is from Lower Circumpolar Water (LCPW) and the hadal water seems to be of the isolated local water rather than LCPW.