The flux of reduced substances, such as methane and ammonium, from the sediment to the bottom water (Fred) is one of the major factors contributing to the consumption of oxygen in the hypolimnia of lakes and thus crucial for lake oxygen management. This study presents fluxes based on sediment porewater measurements from different water depths of five deep lakes of differing trophic states. In meso- to eutrophic lakes Fred was directly proportional to the total organic carbon mass accumulation rate (TOC-MAR) of the sediments. TOC-MAR and thus Fred in eutrophic lakes decreased systematically with increasing mean hypolimnion depth (zH), suggesting that high oxygen concentrations in the deep waters of lakes were essential for the extent of organic matter mineralization leaving a smaller fraction for anaerobic degradation and thus formation of reduced compounds. Consequently, Fred was low in the 310 m deep meso-eutrophic Lake Geneva, with high O2 concentrations in the hypolimnion. By contrast, seasonal anoxic conditions enhanced Fred in the deep basin of oligotrophic Lake Aegeri. As TOC-MAR and zH are based on more readily available data, these relationships allow estimating the areal O2 consumption rate by reduced compounds from the sediments where no direct flux measurements are available.