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In coastal zones globally, salinization is rapidly taking place due to the combined effects of sea level rise, land subsidence, altered hydrology, and climate change. Although increased salinity levels are known to have a great impact on both biogeochemical and hydrological processes in aquatic sediments, only few studies have included both types of processes and their potential interactions. In the present paper, we used a controlled 3‐year experimental mesocosm approach to test salinity induced interactions and discuss mechanisms explaining the observed hydrological changes. Surface water salinity was experimentally increased from 14 to 140 mmol Cl per L (0.9 and 9 PSU) by adding sea salt which increased pore water salinity but also increased sulfate reduction rates, leading to higher sulfide, and lower methane concentrations. By analyzing slug test data with different slug test analysis methods, we were …