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A long‐standing enigma in oceanography is why terrestrial organic matter is "missing" in the global ocean, despite the considerable discharge into it every year. Although some explanations, such as mineralogical composition, hydrodynamic processes, and priming effect, have been proposed, we hypothesize that the essential mechanism behind the missing organic matter is microbial processing, for which the underlying coupled geochemical, molecular, and genetic evidence is unknown. An ultra‐large‐volume, long‐term river–seawater stratified simulation system was constructed to unravel the microbially driven fate of terrigenous particulate organic matter (POM) in oceans. Analysis of combining the molecular with POM chemical composition data suggests that Bacteroidetes could act as pioneers in the processing of terrigenous POM in oceans, degrading high‐molecular‐weight, high‐carbon compounds such as polysaccharides. Remaining low‐molecular‐weight nitrogenous organic matter is subsequently degraded by Planctomycetes and Proteobacteria. Isotopic signals show that this preferential degradation causes a distinct "aging" effect of POM, and along with nitrification enhanced by remineralization, causes a decrease in the POM C : N ratio. Degradation of terrigenous POM and bacterial biomass biosynthesis leads to positive deviations in δ15N and δ13C. Relatively refractory hydrocarbons, aromatic compounds, and phenols are accumulated by microbial processes in this system. This study provides mechanistic insights into the missing chemical and isotopic signals and microbially driven fate of terrigenous POM in the ocean, with important implications for how riverine material input affects marine carbon and nitrogen cycling. [ABSTRACT FROM AUTHOR]

The alterations of nitrogen sources and cycling within the Three Gorges Reservoir (TGR) and downstream the Changjiang were investigated to understand the impacts of the construction of the Three Gorges Dam (TGD) and anthropogenic inputs from the associated watershed. Water samples collected in October 2016 were analyzed for hydrologic parameters, nutrient concentrations, and stable isotopes of nitrate (NO 3 −), ammonium (NH 4 +) and particulate matter. Nitrate dual stable isotope values ranged from +5.8‰ to +7.1‰ and −1.9‰ to +0.4‰ for δ15N and δ18O, respectively. δ15N values in particulate nitrogen (PN) ranged from +0.5‰ to +8.5‰, with slightly lower values before the dam. δ15N-NH 4 + values ranged between +10.5‰ and +19.4‰, likely reflecting the presence of ammonium assimilation throughout the TGR. The contribution of different nitrogen sources was calculated using a Bayesian mixing model. These sources, including soil organic nitrogen, ammonium fertilizer, and sewage effluent, contributed to elevated DIN concentrations within the TGR (83.2 μM–178.5 μM). The construction of the dam has also likely induced changes in the river environment such as ammonium assimilation in the surface waters and nitrification and/or remineralization within the deep waters of the TGR. Overall, during this investigation period, the TGR acted as a sink of PN (retaining 29%), yet negligibly influenced levels of TDN with ~96.5% of TDN exported to the downstream Changjiang and estuary. It is important to understand the long-term impacts of the TGD on the ecological environment of the Changjiang. This study highlights the influence that anthropogenic nitrogen sources have on the natural biogeochemical cycling within the TGR, showing the urgent need to reduce anthropogenic nitrogen pollution. • Stable isotopes of nitrogen species within the Three Gorges Reservoir were studied. • 29% of particulate nitrogen was retained in the Three Gorges Reservoir. • About 96.5% of total dissolved nitrogen exported to the downstream Changjiang. • Ammonium assimilation, nitrification and remineralization existed in the reservoir. • Main nitrate sources were sewage effluent, ammonium fertilizer, and soil nitrogen. [ABSTRACT FROM AUTHOR]