The largest terrestrial organic carbon pool, carbon in soils, is regulated by an intricate connection between plant carbon inputs, microbial activity, and the soil matrix. This is manifested by how microorganisms, the key players in transforming plant-derived carbon into soil organic carbon, are controlled by the physical arrangement of organic and inorganic soil particles. Here we conduct an incubation of isotopically labelled litter to study effects of soil structure on the fate of litter-derived organic matter. While microbial activity and fungal growth is enhanced in the coarser-textured soil, we show that occlusion of organic matter into aggregates and formation of organo-mineral associations occur concurrently on fresh litter surfaces regardless of soil structure. These two mechanisms—the two most prominent processes contributing to the persistence of organic matter—occur directly at plant–soil interfaces, where surfaces of litter constitute a nucleus in the build-up of soil carbon persistence. We extend the notion of plant litter, i.e., particulate organic matter, from solely an easily available and labile carbon substrate, to a functional component at which persistence of soil carbon is directly determined.

It has been shown that reactive soil minerals, specifically iron(III) (oxyhydr)oxides, can trap organic carbon in soils overlying intact permafrost, and may limit carbon mobilization and degradation as it is observed in other environments. However, the use of iron(III)-bearing minerals as terminal electron acceptors in permafrost environments, and thus their stability and capacity to prevent carbon mobilization during permafrost thaw, is poorly understood. We have followed the dynamic interactions between iron and carbon using a space-for-time approach across a thaw gradient in Abisko (Sweden), where wetlands are expanding rapidly due to permafrost thaw. We show through bulk (selective extractions, EXAFS) and nanoscale analysis (correlative SEM and nanoSIMS) that organic carbon is bound to reactive Fe primarily in the transition between organic and mineral horizons in palsa underlain by intact permafrost (41.8 ± 10.8 mg carbon per g soil, 9.9 to 14.8% of total soil organic carbon). During permafrost thaw, water-logging and O₂limitation lead to reducing conditions and an increase in abundance of Fe(III)-reducing bacteria which favor mineral dissolution and drive mobilization of both iron and carbon along the thaw gradient. By providing a terminal electron acceptor, this rusty carbon sink is effectively destroyed along the thaw gradient and cannot prevent carbon release with thaw.

Calcium (Ca) can contribute to soil organic carbon (SOC) persistence by mediating physico-chemical interactions between organic compounds and minerals. Yet, Ca is also crucial for microbial adhesion, potentially affecting colonization of plant and mineral surfaces. The importance of Ca as a mediator of microbe-mineral-organic matter interactions and resulting SOC transformation has been largely overlooked. We incubated ⁴⁴Ca labeled soils with ¹³C¹⁵N labeled leaf litter to study how Ca affects microbial transformation of litter and formation of mineral associated organic matter. Here we show that Ca additions promote hyphae-forming bacteria, which often specialize in colonizing surfaces, and increase incorporation of litter into microbial biomass and carbon use efficiency by approximately 45% each. Ca additions reduce cumulative CO₂ production by 4%, while promoting associations between minerals and microbial byproducts of plant litter. These findings expand the role of Ca in SOC persistence from solely a driver of physico-chemical reactions to a mediator of coupled abiotic-biotic cycling of SOC.

Correlations between organic carbon (OC) and fine mineral particles corroborate the important role of the abundance of soil minerals with reactive surfaces to bind and increase the persistence of organic matter (OM). The storage of OM broadly consists of particulate and mineral-associated forms. Correlative studies on the impact of fine mineral soil particles on OM storage mostly combined data from differing sites potentially confounded by other environmental factors. Here, we analyzed OM storage in a soil clay content gradient of 5–37% with similar farm management and mineral composition. Throughout the clay gradient, soils contained 14 mg OC g⁻¹ on average in the bulk soil without showing any systematic increase. Density fractionation revealed that a greater proportion of OC was stored as occluded particulate OM in the high clay soils (18–37% clay). In low clay soils (5–18% clay), the fine mineral-associated fractions had up to two times higher OC contents than high clay soils. Specific surface area measurements revealed that more mineral-associated OM was related to higher OC loading. This suggests that there is a potentially thicker accrual of more OM at the same mineral surface area within fine fractions of the low clay soils. With increasing clay content, OM storage forms contained more particulate OC and mineral-associated OC with a lower surface loading. This implies that fine mineral-associated OC storage in the studied agricultural soils was driven by thicker accrual of OM and decoupled from clay content limitations.

Soil carbon sequestration arises from the interplay of carbon input and stabilization, which vary in space and time. Assessing the resulting microscale carbon distribution in an intact pore space, however, has so far eluded methodological accessibility. Here, we explore the role of soil moisture regimes in shaping microscale carbon gradients by a novel mapping protocol for particulate organic matter and carbon in the soil matrix based on a combination of Osmium staining, X-ray computed tomography, and machine learning. With three different soil types we show that the moisture regime governs C losses from particulate organic matter and the microscale carbon redistribution and stabilization patterns in the soil matrix. Carbon depletion around pores (aperture > 10 µm) occurs in a much larger soil volume (19–74%) than carbon enrichment around particulate organic matter (1%). Thus, interacting microscale processes shaped by the moisture regime are a decisive factor for overall soil carbon persistence.

Organic compounds exuded by plant roots can form organo-mineral associations through physico-chemical interactions with soil minerals but can disrupt existing organo-mineral associations by increasing their microbial decomposition and dissolution. The controls on these opposing processes are poorly understood, as are the chemical and spatial characteristics of these associations which may explain gain or loss of organic matter at the root-soil interface termed the rhizosphere. By pulse-labeling with ¹³C-carbon dioxide, we found that maize root exudates increased organic matter in the rhizosphere clay size fraction and decreased organic matter in the silt size fraction, and that organic matter loss was mitigated by dry conditions. Organic matter associated with rhizosphere clay particles was linked to microbial metabolism of exudates and was more spatially and chemically heterogeneous than non-rhizosphere clay particles. Our findings show that root exudates can simultaneously form and disrupt organo-mineral associations, mediated by mineral size and composition, and soil moisture.