Short sediment cores were taken at six stations in Wismar Bay, southern Baltic Sea (Germany) in May 2019 using a Rumohr-Lot device. Our aim in this study was to investigate the role of diagenetic element fluxes and different fresh water sources, including submarine groundwater discharge, on the water column in the bay. Porewaters were extracted from the sediment cores by applying the rhizon technique at a resolution between 2 and 5 cm. The porewaters were analyzed for major and trace metals and selected nutrients using a ICP-OES (iCAP, 7400, Duo Thermo Fischer Scientific), total sulphide by a Specord 40 spectrophotometer (Analytik Jena), dissolved inorganic carbon (DIC) and δ13CDIC using an isotope gas mass spectrometre (MAT 253) coupled to a Gasbench II, and δ18OH2O, and δ2HH2O using a CRDS system (laser cavity-ring-down-spectroscopy, Picarro L2140- I). Sediment cores were further sliced at 2 to 4 cm resolution and each freeze-dried solid subsample was analyzed for contents of total carbon, nitrogen, and sulphur using an Elemental Analyzer (Euro Vector EuroEA 3, 052), inorganic carbon using an Elemental Analyzer multi EA (Analytik Jena), total mercury by a DMA-80 analyzer, and HCl-extractable Pb, Mn and Fe using an ICP-OES (iCAP, 7400, Duo Thermo Fischer Scientific).