The Mariana Trench, is one of the ultimate sinks of the earth’ system, providing unique insights to matter cycling and environmental evolution. Trench sediments receive mercury (Hg) from the upper ocean and constitute a global Hg sink. However, little is known about the variation in the Hg cycle that have been driven by geological or environmental changes prior to human activity. Here we present results covering concentrations and isotopic signatures of Hg in the deepest trench system to identify the evolution of Hg cycling in trenches before the Anthropocene. Sediment cores collected from the Mariana Trench showed values for mass independent fractionation (Δ199Hg) of > 0 with ratios of Δ199Hg/Δ201Hg close to 1.0, suggesting that Hg in this system was primarily subjected to atmospheric or water column photochemical processes prior to deposition. Geological proxies and isotopic compositions (δ202Hg: -4.2‰ to -4.5‰, Δ199Hg: 0.28‰ to 0.29‰) comparable only in volcanoes reveal that Hg contents coinciding with the transition from the last glacial termination to the early Holocene can predominantly be attributed to volcanic activity. During the Holocene, atmospheric Hg constituted the main source of Hg in the Mariana Trench, while the last glacial maximum was characterized by an accumulation of both atmospheric and biogenic Hg.