A Mechanistic Framework Linking Climate Forcing, Microbial Transformation, and Sedimentary Carbon Sinks in Deep-Time Oceans

The ocean constitutes the largest actively exchangeable carbon reservoir in Earth’s surface system, with the ocean–atmosphere system functioning as an integrated entity that modulates atmospheric CO2 concentrations over geological timescales. While carbonate and organic-rich sedimentary carbon sinks have been the subject of extensive research, their synergistic roles in long-term carbon–climate feedback loops, as well as the degree to which microbial mediation links ocean hydrographic states to basin-scale carbon sequestration efficiency, remain poorly synthesized. Here, we develop a mechanistic framework comprising five intercoupled components: (1) driving factors (tectonic–climatic forcing and anthropogenic analogs); (2) ocean state controls (basin restriction, water column stratification, and redox conditions); (3) microbial processes (microbial carbon pump-mediated transformation of dissolved organic carbon and the modulating influence of microbial carbonate formation); (4) sedimentary carbon sinks (carbonate platforms versus organic-rich shales underpinning organo-mineral stabilization); and (5) Earth system feedback expressions (e.g., carbon isotope excursions and sustained perturbations in atmospheric CO2 levels). This framework is validated across three contrasting sedimentary basins, including the Western Tethys rift basins, the Cambrian South China platform system, and the Toarcian Lower Saxony restricted basin, and via three falsifiable propositions. Converging evidence from these case studies corroborates three key conclusions: (1) basin restriction and diminished water mass renewal foster water column stratification and hypoxic/anoxic conditions, thereby enhancing organic carbon preservation (P1); (2) the tectonic and depositional setting of a basin modulates the relative predominance of carbonate and organic carbon sinks (P2); and (3) post-extinction anachronistic facies record amplified microbial control over carbon burial pathways (P3). By emphasizing the context dependence of carbon sequestration processes and the significance of organo-mineral stabilization alongside particulate organic carbon export, this synthesis provides a transferable analytical framework for interpreting deep-time carbon cycle transitions and for contextualizing the impacts of modern ocean warming and deoxygenation on natural carbon sinks.