Organo-organic and organo-mineral interfaces in soil at the nanometer scale

Activation of iron oxide minerals in an aquifer by humic acid to promote adsorption of organic molecules

In aquifers, the sequestration and transformation of organic carbon are closely associated with soil iron oxides and can facilitate the release of iron ions from iron oxide minerals. There is a strong interaction between dissolved organic matter (DOM) and iron oxide minerals in aquifers, but the extent to which iron is activated by DOM exposure to active iron minerals in natural aquifers, the microscopic distribution of minerals on the surface, and the mechanisms involved in DOM molecular transformation are currently unclear. This study investigated the nonbiological reduction transformation and coupled adsorption of iron oxide minerals in aquifers containing DOM from both macro- and micro perspectives. The results of macroscopic dynamics experiments indicate that DOM can mediate soluble iron release during the reduction of iron oxide minerals, that pH strongly affects DOM removal, and that DOM is more efficiently degraded at low rather than high pH values, suggesting that a low pH is conducive to DOM adsorption and oxidation. Spherical aberration-corrected scanning transmission electron microscopy (SACTS) indicates that the reacted mineral surfaces are covered with large amounts of carbon and that dynamic agglomeration of iron, carbon, and oxygen occurs. At the nanoscale, three forms of DOM are found in the mineral surface agglomerates (on the surfaces, inside the surface agglomerates, and in the polymer pores). The microscopic organic carbon and iron mineral reaction patterns can form through oxidation reactions and selective adsorption effects. Fourier transform ion cyclotron resonance mass spectra indicate that both synergistic and antagonistic reactions occur between DOM and the minerals, that the release of iron is accompanied by DOM decomposition and humification, that large oxygen- and carbon-containing molecules are broken down into smaller oxygen- and carbon-containing compounds and that more molecules are produced through oxidation under acidic rather than alkaline conditions. These molecules provide adsorption sites for sediment, meaning that more iron can be released. Microscopic evidence for the release of iron was acquired. These results improve the understanding of the geochemical processes affecting iron in groundwater, the nonbiological transformation mechanisms that occur at the interfaces between natural iron minerals and organic matter, groundwater pollution control, and the environmental behavior of pollutants.

Laccase-induced decontamination and humification mechanisms of estrogen in water-crop matrices

Enzymatic humification plays a crucial biogeochemical role in eliminating steroidal estrogens and expanding organic carbon stocks. Estrogenic contaminants in agroecosystems can be taken up and acropetally translocated by crops, but the roles of laccase-triggered rhizospheric humification (L-TRH) in pollutant dissipation and plant uptake remain poorly understood. In this study, the laccase-induced decontamination and humification mechanisms of 17β-estradiol (E2) in water-crop media were investigated by performing greenhouse pot experiments with maize seedlings (Zea mays L.). The results demonstrated that L-TRH effectively dissipated E2 in the rhizosphere solution and achieved the kinetic constants of E2 dissipation at 10 and 50 μM by 8.05 and 2.75 times as much as the treatments without laccase addition, respectively. The copolymerization of E2 and root exudates (i.e. phenols and amino acids) consolidated by L-TRH produced a larger amount of humified precipitates with the richly functional carbon architectures. The growth parameters and photosynthetic pigment levels of maize seedlings were greatly impeded after a 120-h exposure to 50 μM E2, but L-TRH motivated the detoxication process and thus mitigated the phytotoxicity and bioavailability of E2. The tested E2 contents in the maize tissues initially increased sharply with the cultivation time but decreased steadily. Compared with the treatment without laccase addition, the uptake and accumulation of E2 in the maize tissues were obviously diminished by L-TRH. E2 oligomers such as dimer, trimer, and tetramer recognized in the rhizosphere solution were also detected in the root tissues but not in the shoots, demonstrating that the acropetal translocation of E2 oligomers was interrupted. These results highlight a promising strategy for decontaminating estrogenic pollutants, boosting rhizospheric humification, and realizing low-carbon emissions, which would be beneficial for agroenvironmental bioremediation and sustainability.

The inclusion of Amazon mangroves in Brazil's REDD+ program

The Legal Amazon of Brazil holds vast mangrove forests, but a lack of awareness of their value has prevented their inclusion into results-based payments established by the United Nations Framework Convention on Climate Change. Based on an inventory from over 190 forest plots in Amazon mangroves, we estimate total ecosystem carbon stocks of 468 ± 67 Megagrams (Mg) ha-1; which are significantly higher than Brazilian upland biomes currently included into national carbon offset financing. Conversion of mangroves results in potential emissions of 1228 Mg CO2e ha-1, which are 3-fold higher than land use emissions from conversion of the Amazon rainforest. Our work provides the foundation for the inclusion of mangroves in Brazil's intended Nationally Determined Contribution, and here we show that halting mangrove deforestation in the Legal Amazon would generate avoided emissions of 0.9 ± 0.3 Teragrams (Tg) CO2e yr-1; which is equivalent to the annual carbon accumulation in 82,400 ha of secondary forests.

Artificial Humic Acid Mediated Carbon-Iron Coupling to Promote Carbon Sequestration

Fe (hydr)oxides have a substantial impact on the structure and stability of soil organic carbon (SOC) pools and also drive organic carbon turnover processes via reduction-oxidation reactions. Currently, many studies have paid much attention to organic matter-Fe mineral-microbial interactions on SOC turnover, while there is few research on how exogenous carbon addition abiotically regulates the intrinsic mechanisms of Fe-mediated organic carbon conversion. The study investigated the coupling process of artificial humic acid (A-HA) and Fe(hydr)oxide, the mechanism of inner-sphere ligands, and the capacity for carbon sequestration using transmission electron microscopy, thermogravimetric, x-ray photoelectron spectroscopy, and wet-chemical disposal. Furthermore, spherical aberration-corrected scanning transmission electron microscopy-electron energy loss spectroscopy and Mössbauer spectra have been carried out to demonstrate the spatial heterogeneity of A-HA/Fe (hydr)oxides and reveal the relationship between the increase in Fe-phase crystallinity and redox sensitivity and the accumulation of organic carbon. Additionally, the dynamics of soil structures on a microscale, distribution of carbon-iron microdomains, and the cementing-gluing effect can be observed in the constructing nonliving anthropogenic soils, confirming that the formation of stable aggregates is an effective approach to achieving organic carbon indirect protection. We propose that exogenous organic carbon inputs, specifically A-HA, could exert a substantial but hitherto unexplored effect on the geochemistry of iron-carbon turnover and sequestration in anoxic water/solid soils and sediments.

Comparative study of the photooxidation of arsenite mediated by dissolved and mineral-associated humic acid under light irradiation

The photochemical processes of dissolved humic acid and its potential contribution to As(III) oxidation in natural water has received considerable attention. However, the role of mineral-humic complexes in As(III) conversion is rarely studied. Herein, two simulated mineral-humic complexes were prepared by coating humic acid on hydrous aluminum oxide, HA@HAO, or montmorillonite, HA@SWy, respectively, and batch experiments at circumneutral pH were performed under light irradiation. Our findings showed that the light-assisted oxidation of As(III) increased with increasing fractions of organic carbon in mineral-humic complexes, and As(III) photooxidation with HA@HAO or HA@SWy was up to 18.2 or 3.5-fold higher compared to that measured in the presence of equivalent amount of free HA, respectively. The reactive triplet state of HA and hydroxyl radicals in HA@HAO and HA@SWy system made a primary contribution to As(III) oxidation under irradiation. The results indicated that mineral-humic complexes have dual roles, an adsorbent and a photosensitizer, to promote As(III) access to reactive intermediates at the particle surfaces. This process was important for As(III) conversion in paddy water as colloidal particles, composed of both minerals and HA, could greatly promote As(III) oxidation and As(V) immobilization. This study provides a previously overlooked, important mechanism of As(III) phototransformation mediated by mineral-associated humic acid in natural environment.

Research progress of nano-scale secondary ion mass spectrometry (NanoSIMS) in soil science: Evolution, applications, and challenges

Nano-scale secondary ion mass spectrometry (NanoSIMS) has emerged as a powerful analytical tool for investigating various aspects of soils. In recent decades, the widespread adoption of advanced instrumentation and methods has contributed significantly to our understanding of organic-mineral assemblages. However, few literature reviews have comprehensively summarized NanoSIMS and its evolution, applications, limitations, and integration with other analytical techniques. In this review, we addressed this gap by comprehensively overviewing the development of NanoSIMS as an analytical tool in soils. This review covers studies on soil organic matter (SOM) cycling, soil-root interactions, and the behavior of metals, discussing the capability and limitations related to the distribution, composition, and interactions of various soil components that occur at mineral-organic interfaces. Furthermore, we examine recent advancements in high-resolution imaging and mass spectrometry technologies and their impact on the utilization of NanoSIMS in soils, along with potential new applications such as utilizing multiple ion beams and integrating them with other analytical techniques. The review emphasizes the importance of employing advanced techniques and methods to explore micro-interfaces and provide in situ descriptions of organic-mineral assemblages in future research. The ongoing development and refinement of NanoSIMS may yield new insights and breakthroughs in soil science, deepening our understanding of the intricate relationships between soil components and the processes that govern soil health and fertility.

Structure and Chemical Composition of Soil C-Rich Al-Si-Fe Coprecipitates at Nanometer Scale

Soil carbon stabilization is mainly driven by organo-mineral interactions. Coprecipitates, of organic matter with short-range order minerals, detected through indirect chemical extraction methods, are increasingly recognized as key carbon sequestration phases. Yet the atomic structure of these coprecipitates is still rather conceptual. We used transmission electron microscopy imaging combined with energy-dispersive X-ray and electron energy loss spectroscopy chemical mappings, which enabled direct nanoscale characterization of coprecipitates from Andosols. A comparison with reference synthetic coprecipitates showed that the natural coprecipitates were structured by an amorphous Al, Si, and Fe inorganic skeleton associated with C and were therefore even less organized than short-range order minerals usually described. These amorphous types of coprecipitates resembled previously conceptualized nanosized coprecipitates of inorganic oligomers with organics (nanoCLICs) with heterogeneous elemental proportions (of C, Al, Si, and Fe) at nanoscale. These results mark a new step in the high-resolution imaging of organo-mineral associations, while shedding further light on the mechanisms that control carbon stabilization in soil and more broadly in aquatic colloid, sediment, and extraterrestrial samples.

Influence of long-term fertilization on soil aggregates stability and organic carbon occurrence characteristics in karst yellow soil of Southwest China

Current research has long focused on soil organic carbon and soil aggregates stability. However, the effects of different long-term fertilization on the composition of yellow soil aggregates and the characteristics of the occurrence of organic carbon in the karst region of Southwest China are still unclear. Based on a 25-year long-term located experiment on yellow soil, soil samples from the 0-20 cm soil layer were collected and treated with different fertilizers (CK: unfertilized control; NPK: chemical fertilizer; 1/4 M + 3/4 NP: 25% chemical fertilizer replaced by 25% organic fertilizer; 1/2 M + 1/2 NP: 50% chemical fertilizer replaced by organic fertilizer; and M: organic fertilizer). In water-stable aggregates, soil aggregates stability, total organic carbon (TOC), easily oxidized organic carbon (EOC), carbon preservation capacity (CPC), and carbon pool management index (CPMI) were analyzed. The findings demonstrated that the order of the average weight diameter (MWD), geometric mean diameter (GWD), and macro-aggregate content (R_0.25) of stable water aggregates was M > CK > 1/2M +1/2NP > 1/4M +3/4NP> NPK. The MWD, GWD, and R_0.25 of NPK treatment significantly decreased by 32.6%, 43.2%, and 7.0 percentage points, respectively, compared to CK treatment. The order of TOC and EOC content in aggregates of different particle sizes was M > 1/2M +1/2NP > 1/4M +3/4NP> CK > NPK, and it increased as the rate of organic fertilizer increased. In macro-aggregates and bulk soil, the CPC of TOC (TOPC) and EOC (EOPC), as well as CPMI, were arranged as M > 1/2M +1/2NP > 1/4M +3/4NP> CK > NPK, but the opposite was true for micro-aggregates. In bulk soil treated with organic fertilizer, the TOPC, EOPC, and CPMI significantly increased by 27.4%-53.8%, 29.7%-78.1%, 29.7-82.2 percentage points, respectively, compared to NPK treatment. Redundancy analysis and stepwise regression analysis show that TOC was the main physical and chemical factor affecting the aggregates stability, and the TOPC in micro-aggregates has the most direct impact. In conclusion, the primary cause of the decrease in SOC caused by the long-term application of chemical fertilizer was the loss of organic carbon in macro-aggregates. An essential method to increase soil nutrient supply and improve yellow soil productivity was to apply an organic fertilizer to increase aggregates stability, storage and activity of SOC in macro-aggregates.

Nitrogen deposition induces a greater soil C sequestration in the rhizosphere than bulk soil in an alpine forest

Root activity regulates rhizosphere soil carbon (C) dynamics, thereby profoundly affecting soil C sequestration and associated climate feedback. However, whether and how rhizosphere soil organic C (SOC) sequestration responds to atmospheric N deposition remains unclear. We distinguished and quantified the direction and magnitude of soil C sequestration between the rhizosphere and bulk soil of a spruce (Picea asperata Mast.) plantation after 4-year field N additions. Moreover, the contribution of microbial necromass C to SOC accumulation under N addition was further compared between the two soil compartments, considering the crucial role of microbial necromass in soil C formation and stabilization. The results showed that although both the rhizosphere and bulk soil facilitated SOC accumulation in response to N addition, the rhizosphere exerted a greater C sequestration than that of bulk soil. Specifically, compared to the control, SOC content increased 15.03 mg/g and 4.22 mg/g in the rhizosphere and bulk soil under N addition, respectively. Further numerical model analysis showed that SOC pool in the rhizosphere increased by 33.39 % induced by N addition, which was nearly four times of that in the bulk soil (7.41 %). The contribution of increased microbial necromass C to SOC accumulation induced by N addition was significantly higher in the rhizosphere (38.76 %) than that in the bulk soil (31.31 %), which was directly related to the greater accumulation of fungal necromass C in the rhizosphere. Our findings highlighted the vital role of the rhizosphere processes in regulating soil C dynamics under elevating N deposition, and also provided a clear evidence for importance of the microbial-derived C in the SOC sequestration from the rhizosphere perspective.

Water-soluble organic carbon release from mineral soils and sediments in an irrigated agricultural system

Water interactions with soil and vegetation are greatly altered in agricultural watersheds compared to natural landscapes, which impacts sources and fates of organic carbon (OC). While mineral soil horizons in natural ecosystems primarily act as filters for dissolved organic carbon (DOC) leached from organic surface horizons, tilled soils largely lack an organic horizon and their mineral horizons therefore act as a source for both DOC and sediment to surface waters. Irrigated watersheds highlight this difference, as DOC and total suspended sediment (TSS) concentrations simultaneously increase during the low-discharge irrigation season, suggesting that sediment-associated OC may constitute a significant source of DOC. While water-soluble OC (WSOC) from sediments and soils has been found to be compositionally similar to stream DOC, these contributions remain poorly quantified in agricultural streams. To address this, we conducted abiotic solubilization experiments using sediments (suspended and bed) and soils from an irrigated agricultural watershed in northern California, USA. Sediments (R² > 0.99) and soils (0.74 < R² < 0.89) displayed linear solubilization behaviors over the range of concentrations tested. Suspended sediment from the irrigation season exhibited the largest solubilization efficiency (10.9 ± 1.6% TOC_sediment solubilized) and potential (1.79 ± 0.26 mg WSOC g^-1 dry sediment), followed by suspended sediment from a winter storm, then bed sediment and soils. Successive solubilization experiments increased the total release of WSOC by ∼50%, but most (88-97%) of the solid-phase OC remained insoluble in water. Using these solubilization potential estimates and measured TSS concentrations, we estimated that WSOC from suspended sediment in streams represented 4-7% of the annual DOC export from the watershed. However, field sediment export is much higher than what is represented by suspended sediment in the water column, therefore field-scale contributions from sediments could be much higher than estimated.

Identifying and imaging polymer functionality at high spatial resolution with core-loss EELS

Electron energy loss spectroscopy (EELS) is a proven tool for probing materials chemistry at high spatial resolution. Core-loss EELS fine structure should allow measurement of local polymer chemistry. For organic materials, sensitivity to radiolysis is expected to limit the resolution achievable with EELS: but core-loss EELS has proven difficult at any resolution, yielding inconsistent spectra that compare unfavorably with theoretically analogous x-ray absorption spectra. Many of the previously identified shortcomings should not be limiting factors on modern equipment. This study establishes that EELS can generate identifiable carbon K-edge spectra for a range of common polymer types and chemistry, and demonstrates fine structure features matching prior x-ray absorption spectra. EELS fine structure features broaden intuitively with the instrument's energy resolution, and beam-induced features are readily differentiated by collecting spectra at a series of doses. The results are demonstrated with spectrum images of a model polymer blend, and used to estimate practical pixel sizes that can be used for mapping core-loss EELS as a function of electron dose.

Land-use induced soil carbon stabilization at the expense of rock derived nutrients: insights from pristine Andean soils

Soils contain significantly more carbon than the atmosphere, hence we should understand how best to stabilize it. Unfortunately, the role of human interventions on soil organic carbon (SOC) persistence in the Anthropocene remains vague, lacking adequate sites that allow unbiased direct comparisons of pristine and human influenced soils. Here we present data from a unique study system in the High Andes that guarantees pristineness of the reference sites by physical inaccessibility through vertical cliffs. By comparing the isotopic signatures of SOC, mineral related carbon stabilization, and soil nutrient status across grazed versus pristine soils, we provide counterintuitive evidence that thousands of years of pastoralism increased soil C persistence. Mineral associated organic carbon (MAOC) was significantly higher in pastures. Land use increased poorly crystalline minerals (PCM's), of which aluminum correlated best with MAOC. On the other hand, human's acceleration of weathering led to acidification and higher losses of cations. This highlights a dilemma of lower soil quality but higher persistence of SOC due to millennia of pastoralism. The dynamics of soil genesis in the Anthropocene needs better understanding, but if human-induced weathering proves generally to promote soil carbon persistence it will need to be included in climate-soil feedback projections.

Root traits in response to frequent fires: Implications for belowground carbon dynamics in fire-prone savannas

Predicting how belowground carbon storage reflects changes in aboveground vegetation biomass is an unresolved challenge in most ecosystems. This is especially true for fire-prone savannas, where frequent fires shape the fraction of carbon allocated to root traits for post-fire vegetation recovery. Here I review evidence on how root traits may respond to frequent fires and propose to leverage root traits to infer belowground carbon dynamics in fire-prone savannas. Evidently, we still lack an understanding of trade-offs in root acquisitive vs. conservative traits in response to frequent fires, nor have we determined which root traits are functionally important to mediate belowground carbon dynamics in a frequently burned environment. Focusing research efforts along these topics should improve our understanding of savanna carbon cycling under future changes in fire regimes.

Probing Molecular-Level Dynamic Interactions of Dissolved Organic Matter with Iron Oxyhydroxide via a Coupled Microfluidic Reactor and an Online High-Resolution Mass Spectrometry System

The interactions between dissolved organic matter (DOM) and iron (Fe) oxyhydroxide are crucial in regulating the biogeochemical cycling of nutrients and elements, including the preservation of carbon in soils. The mechanisms of DOM molecular assembly on mineral surfaces have been extensively studied at the mesoscale with equilibrium experiments, yet the molecular-level evolution of the DOM-mineral interface under dynamic interaction conditions is not fully understood. Here, we designed a microfluidic reactor coupled with an online solid phase extraction (SPE)-LC-QTOF MS system to continually monitor the changes in DOM composition during flowing contact with Fe oxyhydroxide at circumneutral pH, which simulates soil minerals interacting with constant DOM input. Time-series UV-visible absorption spectra and mass spectrometry data showed that after aromatic DOM moieties were first preferentially sequestered by the pristine Fe oxyhydroxide surface, the adsorption of nonaromatic DOM molecules with greater hydrophobicity, lower acidity, and lower molecular weights (<400) from new DOM solutions was favored. This is accompanied by a transition from mineral surface chemistry-dominated adsorption to organic-organic interaction-dominated adsorption. These findings provide direct molecular-level evidence to the zonal model of DOM assembly on mineral surfaces by taking the dynamics of interfacial interactions into consideration. This study also shows that coupled microfluidics and online high-resolution mass spectrometry (HRMS) system is a promising experimental platform for probing microscale environmental carbon dynamics by integrating in situ reactions, sample pretreatment, and automatic analysis.

Correlative Imaging of the Rhizosphere─A Multimethod Workflow for Targeted Mapping of Chemical Gradients

Examining in situ processes in the soil rhizosphere requires spatial information on physical and chemical properties under undisturbed conditions. We developed a correlative imaging workflow for targeted sampling of roots in their three-dimensional (3D) context and assessed the imprint of roots on chemical properties of the root-soil contact zone at micrometer to millimeter scale. Maize (Zea mays) was grown in 15N-labeled soil columns and pulse-labeled with 13CO2 to visualize the spatial distribution of carbon inputs and nitrogen uptake together with the redistribution of other elements. Soil columns were scanned by X-ray computed tomography (X-ray CT) at low resolution (45 μm) to enable image-guided subsampling of specific root segments. Resin-embedded subsamples were then analyzed by X-ray CT at high resolution (10 μm) for their 3D structure and chemical gradients around roots using micro-X-ray fluorescence spectroscopy (μXRF), nanoscale secondary ion mass spectrometry (NanoSIMS), and laser-ablation isotope ratio mass spectrometry (LA-IRMS). Concentration gradients, particularly of calcium and sulfur, with different spatial extents could be identified by μXRF. NanoSIMS and LA-IRMS detected the release of 13C into soil up to a distance of 100 μm from the root surface, whereas 15N accumulated preferentially in the root cells. We conclude that combining targeted sampling of the soil-root system and correlative microscopy opens new avenues for unraveling rhizosphere processes in situ.

Interactions between organic matter and Fe oxides at soil micro-interfaces: Quantification, associations, and influencing factors

Iron (Fe) oxides are widely recognized to prevent the degradation of organic matter (OM) in environments, thereby promoting the persistence of organic carbon (OC) in soils. Thus, discerning the association mechanisms of Fe oxides and OC interactions is key to effectively influencing the dynamics and extent of organic C cycling in soils. Previous studies have focused on i) quantifying Fe oxide-bound organic carbon (Fe-OC) in individual environments, ii) investigating the distribution and adsorption capacity of Fe-OC, and iii) assessing the redox cycling and transformation of Fe-OC. Furthermore, the widespread application of high-tech instrumentation and methods has greatly contributed to a better understanding of the mechanism of organic mineral assemblages in the past few decades. However, few literature reviews have comprehensively summarized Fe-OC distributions, associations, and characteristics in soil-plant systems. Here, studies investigating the Fe-OC contents among different environments are reviewed. In addition, the mechanisms and processes related to OM transformation dynamics occurring at mineral-organic interfaces are also described. Recent studies have highlighted that diverse interactions occur between Fe oxides and OC, with organic compounds adhering to Fe oxides due to their huge specific surfaces area and active reaction sites. Moreover, we also review methods for understanding Fe-OC interactions at micro-interfaces. Lastly, developmental prospects for understanding coupled Fe-OC geochemical processes in soil environments at molecular- and nano-scales are outlined. The summary suggests that combined advanced techniques and methods should be used in future research to explore micro-interfaces and in situ descriptions of organic mineral assemblages. This review also suggests that future studies need to consider the functional and spatial complexity that is typical of soil/sediment environments where Fe-OC interactions occur.

Clarifying the evidence for microbial- and plant-derived soil organic matter, and the path toward a more quantitative understanding

Predicting and mitigating changes in soil carbon (C) stocks under global change requires a coherent understanding of the factors regulating soil organic matter (SOM) formation and persistence, including knowledge of the direct sources of SOM (plants vs. microbes). In recent years, conceptual models of SOM formation have emphasized the primacy of microbial-derived organic matter inputs, proposing that microbial physiological traits (e.g., growth efficiency) are dominant controls on SOM quantity. However, recent quantitative studies have challenged this view, suggesting that plants make larger direct contributions to SOM than is currently recognized by this paradigm. In this review, we attempt to reconcile these perspectives by highlighting that variation across estimates of plant- versus microbial-derived SOM may arise in part from methodological limitations. We show that all major methods used to estimate plant versus microbial contributions to SOM have substantial shortcomings, highlighting the uncertainty in our current quantitative estimates. We demonstrate that there is significant overlap in the chemical signatures of compounds produced by microbes, plant roots, and through the extracellular decomposition of plant litter, which introduces uncertainty into the use of common biomarkers for parsing plant- and microbial-derived SOM, especially in the mineral-associated organic matter (MAOM) fraction. Although the studies that we review have contributed to a deeper understanding of microbial contributions to SOM, limitations with current methods constrain quantitative estimates. In light of recent advances, we suggest that now is a critical time to re-evaluate long-standing methods, clearly define their limitations, and develop a strategic plan for improving the quantification of plant- and microbial-derived SOM. From our synthesis, we outline key questions and challenges for future research on the mechanisms of SOM formation and stabilization from plant and microbial pathways.

Quantitative assessment of the contribution of soil organic matter functional groups and heteroatoms to PAHs adsorption based on the COSMO-RS model

Soil organic matter (SOM) is considered as a pivotal factor influencing the adsorption of pollutants. However, few prior quantitative investigations of the SOM functional group distribution to the contaminants' fate have been conducted. In this paper, the SOM cluster method based on COSMO-RS theory has been conducted to illustrate the chemical composition variables of SOM that affect the polycyclic aromatic hydrocarbons (PAHs) fate in quantitative terms. In the theoretical simulations, the contributions of carbonyl, carboxyl, aromatic, oxyalkyl and aliphatic groups in SOM to phenanthrene (Phe) and pyrene (Pyr) adsorption are evaluated by calculating the partition coefficients (LogP). The results show that the increase in oxyalkyl content leads to a decrease in LogP. Inversely, carbonyl and carboxyl groups of SOMs positively associated with Phe adsorption. The changes in aromatic and alkyl components have a similar magnitude of influence on LogP. Moreover, the effect of non-carbon-based functional groups in SOM on the Phe partitioning has been examined for the first time. The increase of sulfur and nitrogen content in SOM hinder Phe adsorption, while the rise of phosphorus content promotes the adsorption. In soil adsorption experiments, four natural soils, characterized by X-ray photoelectron spectroscopy (XPS) and Diffuse reflectance infrared Fourier transform (DRIFT), are selected to verify the influence of SOM functional group distribution. Comparing the experimental SOM-water partition coefficient (LogK_oc) with the simulation predicted LogP suggests that the COSMO-RS based SOM cluster method can predict PAHs adsorption ability in SOM.

Implications of Free and Occluded Fine Colloids for Organic Matter Preservation in Arable Soils

Colloidal organo-mineral associations contribute to soil organic matter (OM) preservation and mainly occur in two forms: (i) as water-dispersible colloids that are potentially mobile (free colloids) and (ii) as building units of soil microaggregates that are occluded inside them (occluded colloids). However, the way in which these two colloidal forms differ in terms of textural characteristics and chemical composition, together with the nature of their associated OM, remains unknown. To fill these knowledge gaps, free and occluded fine colloids <220 nm were isolated from arable soils with comparable organic carbon (C_org) but different clay contents. Free colloids were dispersed in water suspensions during wet-sieving, while occluded colloids were released from water-stable aggregates by sonication. The asymmetric flow field-flow fractionation analysis on the free and occluded colloids suggested that most of the 0.6-220 nm fine colloidal C_org was present in size fractions that showed high abundances of Si, Al, and Fe. The pyrolysis-field ionization mass spectrometry revealed that the free colloids were relatively rich in less decomposed plant-derived OM (i.e., lipids, suberin, and free fatty acids), whereas the occluded colloids generally contained more decomposed and microbial-derived OM (i.e., carbohydrates and amides). In addition, a higher thermal stability of OM in occluded colloids pointed to a higher resistance to further degradation and mineralization of OM in occluded colloids than that in free colloids. This study provides new insights into the characteristics of subsized fractions of fine colloidal organo-mineral associations in soils and explores the impacts of free versus occluded colloidal forms on the composition and stability of colloid-associated OM.

Advances in Molecular and Microscale Characterization of Soil Organic Matter: Current Limitations and Future Prospects

Soil organic matter (SOM) comprises a continuum of organic materials from granular organic debris to small organic molecules and contains more organic carbon than global vegetation and the atmosphere combined. It has remarkable effects on soil ecological functions and the global carbon cycle as well as the fate of pollutants in the terrestrial ecosystem. Therefore, characterization of SOM is an important topic in soil science, ecology, and environmental science. Chemical complexity and spatial heterogeneity are by far the two biggest challenges to our understanding of SOM. Recent developments in analytical techniques and methods provide the opportunity to reveal SOM composition at the molecular level and to observe its distribution in soils at micro- and nanoscales, which have greatly improved our understanding of SOM. This paper reviews the outstanding advances in SOM characterization regarding these two issues from target and nontarget analyses comprising molecular marker analysis, ultrahigh-resolution mass spectrometry analysis, and in situ microscopic imaging techniques such as synchrotron-based spectromicroscopy, nanoscale secondary ion mass spectrometry, and emerging electron and optical microscopic imaging techniques. However, current techniques and methods remain far from unlocking the unknown properties of SOM. We systematically point out the limitations of the current technologies and outline the future prospects for comprehensive characterization of SOM at the molecular level and micro- and nanoscales, paying particular attention to issues of environmental concern.

Microspectroscopic visualization of how biochar lifts the soil organic carbon ceiling

The soil carbon (C) saturation concept suggests an upper limit to the storage of soil organic carbon (SOC). It is set by the mechanisms that protect soil organic matter from mineralization. Biochar has the capacity to protect new C, including rhizodeposits and microbial necromass. However, the decadal-scale mechanisms by which biochar influences the molecular diversity, spatial heterogeneity, and temporal changes in SOC persistence, remain unresolved. Here we show that the soil C storage ceiling of a Ferralsol under subtropical pasture was raised by a second application of Eucalyptus saligna biochar 8.2 years after the first application—the first application raised the soil C storage ceiling by 9.3 Mg new C ha⁻¹ and the second application raised this by another 2.3 Mg new C ha⁻¹. Linking direct visual evidence from one-, two-, and three-dimensional analyses with SOC quantification, we found high spatial heterogeneity of C functional groups that resulted in the retention of rhizodeposits and microbial necromass in microaggregates (53–250 µm) and the mineral fraction (<53 µm). Microbial C-use efficiency was concomitantly increased by lowering specific enzyme activities, contributing to the decreased mineralization of native SOC by 18%. We suggest that the SOC ceiling can be lifted using biochar in (sub)tropical grasslands globally.

A decadal-scale field trial revealed 1.01 Mg of rhizodeposit and necromass C was stored in soil microaggregate and mineral fractions per Mg biochar-C applied. Microspectroscopic analyses visualize mechanisms for this elevated soil C storage ceiling.

Significant Contribution of Solid Organic Matter for Hydroxyl Radical Production during Oxygenation

Dark formation of hydroxyl radicals (•OH) from soil/sediment oxygenation has been increasingly reported, and solid Fe(II) is considered as the main electron donor for O₂ activation. However, the role of solid organic matter (SOM) in •OH production is not clear, although it represents an important electron pool in the subsurface. In this study, •OH production from oxygenation of reduced solid humic acid (HA_red) was investigated at pH 7.0. •OH production is linearly correlated with the electrons released from HA_red suspension. Solid HA_red transferred electrons rapidly to O₂ via the surface-reduced moieties (hydroquinone groups), which was fueled by the slow electron transfer from the reduced moieties inside solid HA. Cycling of dissolved HA between oxidized and reduced states could mediate the electron transfer from solid HA_red to O₂ for •OH production enhancement. Modeling results predicted that reduced SOM played an important or even dominant role in •OH production for the soils and sediments possessing high molar ratios of SOC/Fe(II) (e.g., >39). The significant contribution of SOM was further validated by the modeling results for oxygenation of 88 soils/sediments in the literature. Therefore, reduced SOM should be considered carefully to comprehensively understand •OH production in SOM-rich subsurface environments.

More soil organic carbon is sequestered through the mycelium pathway than through the root pathway under nitrogen enrichment in an alpine forest

Plant roots and associated mycorrhizae exert a large influence on soil carbon (C) cycling. Yet, little was known whether and how roots and ectomycorrhizal (ECM) extraradical mycelia differentially contribute to soil organic C (SOC) accumulation in alpine forests under increasing nitrogen (N) deposition. Using ingrowth cores, the relative contributions of the root pathway (RP; i.e., roots and rhizosphere processes) and mycelium pathway (MP; i.e., extraradical mycelia and hyphosphere processes) to SOC accumulation were distinguished and quantified in an ECM-dominated forest receiving chronic N addition (25 kg N ha^-1  year^-1 ). Under the non-N addition, the RP facilitated SOC accumulation, although the MP reduced SOC accumulation. Nitrogen addition enhanced the positive effect of RP on SOC accumulation from +18.02 to +20.55 mg C g^-1 but counteracted the negative effect of MP on SOC accumulation from -5.62 to -0.57 mg C g^-1 , compared with the non-N addition. Compared with the non-N addition, the N-induced SOC accumulation was 1.62-2.21 and 3.23-4.74 mg C g^-1 , in the RP and the MP, respectively. The greater contribution of MP to SOC accumulation was mainly attributed to the higher microbial C pump (MCP) efficacy (the proportion of increased microbial residual C to the increased SOC under N addition) in the MP (72.5%) relative to the RP (57%). The higher MCP efficacy in the MP was mainly associated with the higher fungal metabolic activity (i.e., the greater fungal biomass and N-acetyl glucosidase activity) and greater binding efficiency of fungal residual C to mineral surfaces than those of RP. Collectively, our findings highlight the indispensable role of mycelia and hyphosphere processes in the formation and accumulation of stable SOC in the context of increasing N deposition.

Selective sorption and desorption of DOM in podzol horizons - FTIR and Py-GC/MS of leachates from a column experiment

The sorption of dissolved organic matter (DOM) depends on its interaction with the soil matrix. In hydromorphic podzols, DOM reacts mainly with aluminium (Al), which is responsible for the formation of the Bh-horizon in the subsoil. In this work, we investigated whether the retention of DOM in the soil during the podzolization process is selective in relation to the molecular composition of DOM. A column experiment was conducted to study the selective retention of sorption and desorption processes under controlled conditions. Materials used in the column experiment were representative for Brazilian coastal podzols under tropical rainforest. Materials were collected from this tropical coastal podzol ecosystem, and included soil from E- and Bh-horizons, and DOM from a stream (Stream), peat water (Peat), litter (Litter) and charred litter (Char). To evaluate selective retention of DOM, both the initial DOM and its leachates were analyzed by Fourier transform infrared spectra absorption (FTIR) and pyrolysis gas-chromatography/mass spectrometry (Py-GC/MS). The results showed preferential retention of DOM associated with biopolymers for soil columns with E-horizon material (E), E with Al nitrate (E-n), E with kaolinite (E-k) and E with gibbsite (E-h), except for Char. The composition of leachates after percolation through B horizon columns was mainly determined by desorption, and had a relatively large contribution from phenolic and carboxylic groups associated with Al and low molecular weight aromatic and N-containing pyrolysis products, while products from macromolecular materials such as cellulose were selectively retained in the columns for all DOM types. DOM from the Stream (taken during the rainy season) resembled that of desorbed OM from the B columns, reinforcing substantial desorption in the field as well. Our results suggest that sorption and desorption of OM in the hydromorphic Bh-horizon is continuous and that the selectivity of sorption is dependent on DOM source.

NOM-mineral interaction: Significance for speciation of cations and anions

In this study, the nano-scale spatial distribution of natural organic matter (NOM) on the surface of iron (hydr)oxides and its relevance to oxyanion (PO₄^3-) and metal cation (Cd²⁺ and Cu²⁺) adsorption to the assemblage of oxide (goethite) and NOM (humic acids (HA) or fulvic acids (FA)) was investigated with experiments and advanced surface complexation modeling. Both the linear additive Multi-Surface model (MSM) and the more sophisticated Natural Organic Matter-Charge Distribution (NOM-CD) model were used. The MSM model ignores the effects of NOM-mineral interaction on ion adsorption, whereas the NOM-CD model considers this effect. The results showed that with the increase of NOM loading on oxides, deviation between the MSM and NOM-CD model became bigger for PO₄^3-, but smaller for Cd²⁺ and Cu²⁺. Oxyanions bind mainly to oxides and therefore the competitive effect of NOM cannot be neglected, which explains the large difference between these two models for PO₄^3-. On the contrary, at a relatively high NOM loading, a large fraction of NOM extends further away from the surface of oxides. Thus for metal cations that bind mainly to NOM, the influence of NOM-mineral interaction on their adsorption is small and the results of the MSM and NOM-CD model are similar. In top soils, the NOM loading on oxides is often high, therefore the linear additive MSM is applicable for metal cation speciation calculations as reported in many literatures. An approach based on the NOM-CD model was proposed, which can not only calculate the macroscopic solid-solution distribution of both cations and anions, but can also provide information regarding their microscopic surface speciation.

Coupled Sorption and Oxidation of Soil Dissolved Organic Matter on Manganese Oxides: Nano/Sub-nanoscale Distribution and Molecular Transformation

In soil environments, the sequestration and transformation of organic carbon are closely associated with soil minerals. Birnessite (MnO₂) is known to strongly interact with soil dissolved organic matter (DOM), but the microscopic distribution and molecular transformation of soil DOM on birnessite are still poorly understood. In this study, the coupled sorption and oxidation of soil DOM on birnessite were investigated at both the microscopic scale and the molecular level. Spherical aberration corrected scanning transmission electron microscopy (Cs-STEM) results revealed, at the nano- to sub-nanoscale, that DOM was located both on the surfaces and within the interflakes or pore spaces of birnessite, and DOM within the interflakes displayed a higher oxidation state than that on the surfaces. Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR-MS) results suggested that a portion of phenolic compounds were preferentially sorbed and oxidized, resulting in the formation of compounds with higher oxygen contents and polymeric products. Our Cs-STEM and FT-ICR-MS results highlighted the significance of organo-mineral associations in the microscopic mineral structure for the reactivity of organic carbon and provided the molecular evidence for the transformation of soil DOM by birnessite, which contributed to the understanding of the dynamics of soil dissolved organic carbon.

Label-Free Multiphoton Imaging of Microbes in Root, Mineral, and Soil Matrices with Time-Gated Coherent Raman and Fluorescence Lifetime Imaging

Imaging biogeochemical interactions in complex microbial systems─such as those at the soil-root interface─is crucial to studies of climate, agriculture, and environmental health but complicated by the three-dimensional (3D) juxtaposition of materials with a wide range of optical properties. We developed a label-free multiphoton nonlinear imaging approach to provide contrast and chemical information for soil microorganisms in roots and minerals with epi-illumination by simultaneously imaging two-photon excitation fluorescence (TPEF), coherent anti-Stokes Raman scattering (CARS), second-harmonic generation (SHG), and sum-frequency mixing (SFM). We used fluorescence lifetime imaging (FLIM) and time gating to correct CARS for the autofluorescence background native to soil particles and fungal hyphae (TG-CARS) using time-correlated single-photon counting (TCSPC). We combined TPEF, TG-CARS, and FLIM to maximize image contrast for live fungi and bacteria in roots and soil matrices without fluorescence labeling. Using this instrument, we imaged symbiotic arbuscular mycorrhizal fungi (AMF) structures within unstained plant roots in 3D to 60 μm depth. High-quality imaging was possible at up to 30 μm depth in a clay particle matrix and at 15 μm in complex soil preparation. TG-CARS allowed us to identify previously unknown lipid droplets in the symbiotic fungus, Serendipita bescii. We also visualized unstained putative bacteria associated with the roots of Brachypodium distachyon in a soil microcosm. Our results show that this multimodal approach holds significant promise for rhizosphere and soil science research.

Legacy Effects of Sorption Determine the Formation Efficiency of Mineral-Associated Soil Organic Matter

Sorption of dissolved organic matter (DOM) is one major pathway in the formation of mineral-associated organic matter (MOM), but there is little information on how previous sorption events feedback to later ones by leaving their imprint on mineral surfaces and solutions ("legacy effect"). In order to conceptualize the role of legacy effects in MOM formation, we conducted sequential sorption experiments with kaolinite and gibbsite as minerals and DOM derived from forest floor materials. The MOM formation efficiency leveled off upon repeated addition of identical DOM solutions to minerals due to the retention of highly sorptive organic molecules (primarily aromatic, nitrogen-poor, hydrogen-poor, and oxygen-rich molecules), which decreased the sorption site availability and simultaneously modified the mineral surface charge. Organic-organic interactions as postulated in multilayer models played a negligible role in MOM formation. Continued exchange between DOM and MOM molecules upon repeated sorption altered the DOM composition but not the MOM formation efficiencies. Sorption-induced depletion of high-affinity compounds from solutions further decreased the MOM formation efficiencies to pristine minerals. Overall, the interplay between the differential sorptivities of DOM components and the mineral surface chemistry explains the legacy effects that contribute to the regulation of fluxes and the distribution of organic matter in the soil.

Significant Aggregation-Enhanced Carrier Separation in Nanoscopic Catalysts Heterojunction Stacks

Nanoscopic heterojunction stacks are prevalent in nature as well as in artificial material systems, such as the nanoscopically blended components in soil or artificial catalytic layers on device surfaces. Despite the enormous attention placed on studying individual heterojunctions, the advantageous catalytic performance of heterojunction aggregates has not been recognized. In this study, we employ the ordered N-doped TiO₂ nanosheets and Au nanoparticle heterojunction multilayers obtained by a layer-by-layer technique to investigate the functional merits stemmed from heterojunction aggregates. The study demonstrates that nanoscopic heterojunction stacks promote the internal electric field that stemmed from charge separation and boost carrier separations. The aggregate-enhanced carrier separation can be harnessed in chemical conversions. The enhancement effect is influenced by both the dimensions of the entire aggregates as well as the dimensions of the nanoscopic building units. We expect the study to promote the understanding of heterojunction catalysts and corresponding matter conversion from the individual particulate level to the nanoscopic aggregate level and facilitate better harnessing of the photovoltaic effects or catalytic power in nanoscopic heterojunction aggregates.

Distinct storage mechanisms of soil organic carbon in coniferous forest and evergreen broadleaf forest in tropical China

The impact of human activities on soil carbon (C) storage in tropical forests has aroused wide concern during the past decades, because these ecosystems play a key role in ameliorating global climate change. However, there remain uncertainties about how land-use history alters soil organic carbon (SOC) stability and storage in different forests. In this study, we measured the C content and mass distributions of soil aggregates, density fractions, mineral-bound C and microbial biomass C in the organic horizon, 0-10 cm and 10-20 cm soil layers in coniferous forest and evergreen broadleaf forest at Dinghushan Biosphere Reserve in tropical China. The broadleaf forest had larger SOC stocks than the coniferous forest, but the proportion of SOC stored in different density fractions at 0-10 cm soils was similar between forest types, while a greater proportion of SOC was stored in microaggregates in the coniferous forest. Most of the SOC was held as light fraction C in the organic horizon in the coniferous forest, whereas the concentrations of mineral-bound C were higher in the broadleaf forest. These findings indicate clear differences in the protection of SOC between broadleaf and coniferous forests growing on the same soil type. We propose that historic conversion of broadleaf forest to coniferous forest has reduced soil C sequestration capacity by altering the diversity and quality of plant inputs to the soil, which in turn affected macroaggregate formation, soil chemical properties and microbial biomass. Our results thus demonstrate that changes in forest tree species composition could have long-lasting effects on soil structure and carbon storage, providing crucial evidence for policy decisions on forest carbon sink management.

Effects of biochar aging in the soil on its mechanical property and performance for soil CO2 and N2O emissions

Biochar application into the soils has been reported to have huge carbon sequestration potential, although it remains unclear that how the biochar aging in the soil affects its mechanical properties and soil CO₂ and N₂O emissions. This work assessed the impact of soil biochar aging on its physicochemical properties, microbiota community in the biochar, and soil CO₂ and N₂O emissions. Various characterizations (e.g., SEM-EDS, XRD, and FTIR) of fresh and aged biochar indicated that soil minerals accumulated on the biochar during the field aging process, forming organo-mineral complexes and blocking the cracks and channels on the biochar. The measured hardness and compressive strength of aged biochar were significantly higher than those of fresh biochar, consistent with the presence of soil minerals on the aged biochar. The soil CO₂ and N₂O emissions were significantly decreased after the addition of aged biochar particles, as compared to fresh biochar particles. This was probably because that the improved mechanical properties could inhibit the fragmentation of biochar particles, reducing the release of labile fractions from the biochar and the subsequent CO₂ and N₂O emissions. Moreover, the presence of CO₂-fixing bacteria (e.g., Chloroflexi) and inhibited nitrification and ammonia oxidation in aged biochar particles might also reduce CO₂ and N₂O emissions. These findings suggest aged biochar particles with improved physical stability to the soil could enhance soil carbon sequestration and greenhouse gas emission reduction.

Molecular Determination of Organic Adsorption Sites on Smectite during Fe Redox Processes Using ToF-SIMS Analysis

Turnover of soil organic carbon (SOC) is strongly affected by a balance between mineral protection and microbial degradation. However, the mechanisms controlling the heterogeneous and preferential adsorption of different types of SOC remain elusive. In this work, the heterogeneous adsorption of humic substances (HSs) and microbial carbon (MC) on a clay mineral (nontronite NAu-2) during microbial-mediated Fe redox cycling was determined using time-of-flight secondary ion mass spectrometry (ToF-SIMS). The results revealed that HSs pre-adsorbed on NAu-2 would partially inhibit structural modification of NAu-2 by microbial Fe(III) reduction, thus retarding the subsequent adsorption of MC. In contrast, NAu-2 without precoated HSs adsorbed a significant amount of MC from microbial polysaccharides as a result of Fe(III) reduction. This was attributed to the deposition of a thin Al-rich layer on the clay surface, which provided active sites for MC adsorption. This study provides direct and detailed molecular evidence for the first time to explain the preferential adsorption of MC over HSs on the surface of clay minerals in iron redox processes, which could be critical for the preservation of MC in soil. The results also indicate that ToF-SIMS is a unique tool for understanding complex organic-mineral-microbe interactions.