Skip to main content
U.S. Department of Energy
Office of Scientific and Technical Information

Bridging 20 Years of Soil Organic Matter Frameworks: Empirical Support, Model Representation, and Next Steps

Journal Article · · Journal of Geophysical Research. Biogeosciences
DOI:https://doi.org/10.1029/2023JG007964· OSTI ID:2369834
 [1];  [2];  [3];  [4];  [3];  [5];  [3];  [6];  [7];  [3];  [8]
  1. Institute of Arctic and Alpine Research University of Colorado Boulder CO USA, Institute for Global Change Biology University of Michigan Ann Arbor MI USA
  2. Department of Soil and Crop Sciences Colorado State University Fort Collins CO USA
  3. Department of Natural Resources and the Environment Center of Soil Biogeochemistry and Microbial Ecology University of New Hampshire Durham NH USA
  4. Point Blue Conservation Science Petaluma CA USA
  5. Physical and Life Sciences Directorate Lawrence Livermore National Laboratory Livermore CA USA
  6. Pacific Northwest National Laboratory Richland WA USA
  7. Institute for Global Change Biology University of Michigan Ann Arbor MI USA, Department of Forest Resources University of Minnesota St. Paul MN USA
  8. Institute of Arctic and Alpine Research University of Colorado Boulder CO USA, Climate and Global Dynamics Laboratory National Center for Atmospheric Research Boulder CO USA
Abstract

In the past few decades, there has been an evolution in our understanding of soil organic matter (SOM) dynamics from one of inherent biochemical recalcitrance to one deriving from plant‐microbe‐mineral interactions. This shift in understanding has been driven, in part, by influential conceptual frameworks which put forth hypotheses about SOM dynamics. Here, we summarize several focal conceptual frameworks and derive from them six controls related to SOM formation, (de)stabilization, and loss. These include: (a) physical inaccessibility; (b) organo‐mineral and ‐metal stabilization; (c) biodegradability of plant inputs; (d) abiotic environmental factors; (e) biochemical reactivity and diversity; and (f) microbial physiology and morphology. We then review the empirical evidence for these controls, their model representation, and outstanding knowledge gaps. We find relatively strong empirical support and model representation of abiotic environmental factors but disparities between data and models for biochemical reactivity and diversity, organo‐mineral and ‐metal stabilization, and biodegradability of plant inputs, particularly with respect to SOM destabilization for the latter two controls. More empirical research on physical inaccessibility and microbial physiology and morphology is needed to deepen our understanding of these critical SOM controls and improve their model representation. The SOM controls are highly interactive and also present some inconsistencies which may be reconciled by considering methodological limitations or temporal and spatial variation. Future conceptual frameworks must simultaneously refine our understanding of these six SOM controls at various spatial and temporal scales and within a hierarchical structure, while incorporating emerging insights. This will advance our ability to accurately predict SOM dynamics.

Research Organization:
Lawrence Livermore National Laboratory (LLNL), Livermore, CA (United States); Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)
Sponsoring Organization:
USDOE; USDOE Laboratory Directed Research and Development (LDRD) Program; USDOE National Nuclear Security Administration (NNSA)
Grant/Contract Number:
AC05-76RL01830; AC52-07NA27344
OSTI ID:
2369834
Alternate ID(s):
OSTI ID: 2375436
OSTI ID: 2377815
OSTI ID: 2473222
Report Number(s):
LLNL--JRNL-860406; PNNL-SA--197255; e2023JG007964
Journal Information:
Journal of Geophysical Research. Biogeosciences, Journal Name: Journal of Geophysical Research. Biogeosciences Journal Issue: 6 Vol. 129; ISSN 2169-8953
Publisher:
American Geophysical Union (AGU)Copyright Statement
Country of Publication:
United States
Language:
English

References (215)

Evaluating soil biogeochemistry parameterizations in Earth system models with observations: Soil Biogeochemistry in ESMs journal March 2014
Sensitivity of decomposition rates of soil organic matter with respect to simultaneous changes in temperature and moisture journal February 2015
Differences in soil organic matter between EcM ‐ and AM ‐dominated forests depend on tree and fungal identity journal January 2023
Towards Establishing the Age, Location, and Identity of the Inert Soil Organic Matter of a Spodosol journal January 1992
Stabilization mechanisms of organic matter in four temperate soils: Development and application of a conceptual model journal February 2008
Organo-mineral associations in temperate soils: Integrating biology, mineralogy, and organic matter chemistry journal February 2008
How relevant is recalcitrance for the stabilization of organic matter in soils? journal February 2008
Soil-carbon preservation through habitat constraints and biological limitations on decomposer activity journal February 2008
Microaggregates in soils journal August 2017
Perspectives from the Fritz‐Scheffer Awardee 2021: Soil organic matter storage and functions determined by patchy and piled‐up arrangements at the microscale journal July 2022
Molecular turnover time of soil organic matter in particle‐size fractions of an arable soil journal July 2009
Soil Organic Matter Models and Global Estimates of Soil Organic Carbon conference January 1996
The retention of organic matter in soils journal February 1988
Temperature dependence of organic matter decomposition: a critical review using literature data analyzed with different models journal July 1998
Carbon cycling traits of plant species are linked with mycorrhizal strategy journal December 2001
The Millennial model: in search of measurable pools and transformations for modeling soil carbon in the new century journal December 2017
Incorporation of shoot versus root-derived 13C and 15N into mineral-associated organic matter fractions: results of a soil slurry incubation with dual-labelled plant material journal February 2018
Minerals in the rhizosphere: overlooked mediators of soil nitrogen availability to plants and microbes journal June 2018
Improving understanding of soil organic matter dynamics by triangulating theories, measurements, and models journal July 2018
Multiple models and experiments underscore large uncertainty in soil carbon dynamics journal October 2018
Is soil carbon mostly root carbon? Mechanisms for a specific stabilisation journal February 2005
Deep soil organic matter—a key but poorly understood component of terrestrial C cycle journal May 2010
Advances in Molecular Approaches for Understanding Soil Organic Matter Composition, Origin, and Turnover: A Historical Overview book January 2018
Soil organic matter formation, persistence, and functioning: A synthesis of current understanding to inform its conservation and regeneration book December 2021
Physical constraints affecting bacterial habitats and activity in unsaturated porous media – a review journal June 2007
Ecological controls on net ecosystem productivity of a seasonally dry annual grassland under current and future climates: Modelling with ecosys journal January 2012
Precipitation increment reinforced warming-induced increases in soil mineral-associated and particulate organic matter under agricultural ecosystem journal April 2024
Carbon saturation deficit and litter quality drive the stabilization of litter-derived C in mineral-associated organic matter in long-term no-till soil journal December 2022
AggModel: A soil organic matter model with measurable pools for use in incubation studies journal August 2013
Nitrogen mineralization drives the response of forest productivity to soil warming: Modelling in ecosys vs. measurements from the Harvard soil heating experiment journal September 2014
Tree species effects on nutrient cycling and soil biota: A feedback mechanism favouring species coexistence journal December 2013
Mineralogical impact on organic nitrogen across a long-term soil chronosequence (0.3–4100kyr) journal April 2010
Development of soil radiocarbon profiles in a reactive transport framework journal August 2021
Strategies used by soil biota to overcome soil organic matter stability — why is dead organic matter left over in the soil? journal September 2005
Dissolved organic matter release and retention in an alkaline soil from the Nile River Delta in relation to surface charge and electrolyte type journal September 2010
Evidence of aggregate hierarchy at micro- to submicron scales in an allophanic Andisol journal March 2014
Adsorption-desorption behavior of dissolved organic carbon by soil clay fractions of varying mineralogy journal October 2016
Selective preservation of pyrogenic carbon across soil organic matter fractions and its influence on calculations of carbon mean residence times journal November 2019
Climate, carbon content, and soil texture control the independent formation and persistence of particulate and mineral-associated organic matter in soil journal April 2020
Rhizosphere priming regulates soil organic carbon and nitrogen mineralization: The significance of abiotic mechanisms journal March 2021
Functional complexity explains the depth-dependent response of organic matter to liming at the nanometer scale journal February 2022
Molecular diversity and the fate of biochemical fractions of eucalypt tissues in soil journal April 2023
Mineral-associated organic carbon predicts the variations in microbial biomass and specific enzyme activities in a subtropical forest journal November 2023
The ability of soils to aggregate, more than the state of aggregation, promotes protected soil organic matter formation journal February 2024
Microbial adaption to stoichiometric imbalances regulated the size of soil mineral-associated organic carbon pool under continuous organic amendments journal May 2024
The chemical composition of measurable soil organic matter pools journal August 2005
13C and 15N stabilization dynamics in soil organic matter fractions during needle and fine root decomposition journal April 2008
Association of specific organic matter compounds in size fractions of soils under different environmental controls journal November 2011
Molecular C dynamics downstream: The biochemical decomposition sequence and its impact on soil organic matter structure and function journal October 2008
The detrital input and removal treatment (DIRT) network: Insights into soil carbon stabilization journal November 2018
Temperature sensitivity of decomposition decreases with increasing soil organic matter stability journal February 2020
Dynamics of organic matter molecular composition under aerobic decomposition and their response to the nitrogen addition in grassland soils journal February 2022
Episodic rewetting enhances carbon and nitrogen release from chaparral soils journal December 2005
Fate of gram-negative bacterial biomass in soil—mineralization and contribution to SOM journal September 2006
SOM fractionation methods: Relevance to functional pools and to stabilization mechanisms journal September 2007
Carbon structure and enzyme activities in alpine and forest ecosystems journal November 2007
Stabilised carbon in subsoil horizons is located in spatially distinct parts of the soil profile journal February 2009
Searching for unifying principles in soil ecology journal November 2009
Priming effects: Interactions between living and dead organic matter journal September 2010
A cross-seasonal comparison of active and total bacterial community composition in Arctic tundra soil using bromodeoxyuridine labeling journal February 2011
Extramatrical mycelia of ectomycorrhizal fungi as moderators of carbon dynamics in forest soil journal April 2012
Investigating the role of moisture as an environmental constraint in the decomposition of shallow and deep mineral soil organic matter of a temperate coniferous soil journal January 2014
Bioavailability and isotopic composition of CO2 released from incubated soil organic matter fractions journal February 2014
Organic acid induced release of nutrients from metal-stabilized soil organic matter – The unbutton model journal May 2015
Fate of ectomycorrhizal fungal biomass in a soil bioreactor system and its contribution to soil organic matter formation journal September 2015
Contribution of sorption, DOC transport and microbial interactions to the 14C age of a soil organic carbon profile: Insights from a calibrated process model journal September 2015
Microbial physiology and necromass regulate agricultural soil carbon accumulation journal December 2015
The nature and dynamics of soil organic matter: Plant inputs, microbial transformations, and organic matter stabilization journal July 2016
Substrate quality influences organic matter accumulation in the soil silt and clay fraction journal December 2016
Mineral properties, microbes, transport, and plant-input profiles control vertical distribution and age of soil carbon stocks journal April 2017
Consequences of drought tolerance traits for microbial decomposition in the DEMENT model journal April 2017
Combined turnover of carbon and soil aggregates using rare earth oxides and isotopically labelled carbon as tracers journal June 2017
Rhizosphere priming effect: A meta-analysis journal August 2017
Isolating organic carbon fractions with varying turnover rates in temperate agricultural soils – A comprehensive method comparison journal October 2018
Root litter decomposition slows with soil depth journal October 2018
Plant litter quality affects the accumulation rate, composition, and stability of mineral-associated soil organic matter journal October 2018
Universality of priming effect: An analysis using thirty five soils with contrasted properties sampled from five continents journal July 2019
Nitrogen addition has contrasting effects on particulate and mineral-associated soil organic carbon in a subtropical forest journal March 2020
Nutrient addition reduces carbon sequestration in a Tibetan grassland soil: Disentangling microbial and physical controls journal May 2020
Combination of energy limitation and sorption capacity explains 14C depth gradients journal September 2020
Allocation and turnover of rhizodeposited carbon in different soil microbial groups journal November 2020
Substrate spatial heterogeneity reduces soil microbial activity journal January 2021
Plant- or microbial-derived? A review on the molecular composition of stabilized soil organic matter journal May 2021
Priming mechanisms providing plants and microbes access to mineral-associated organic matter journal July 2021
Shifts in microbial metabolic pathway for soil carbon accumulation along subtropical forest succession journal September 2021
Microbial necromass as the source of soil organic carbon in global ecosystems journal November 2021
Improved global-scale predictions of soil carbon stocks with Millennial Version 2 journal January 2022
Disentangling the effects of nitrogen availability and soil acidification on microbial taxa and soil carbon dynamics in natural grasslands journal January 2022
Root exudates shift how N mineralization and N fixation contribute to the plant-available N supply in low fertility soils journal February 2022
Microbial feedbacks on soil organic matter dynamics underlying the legacy effect of diversified cropping systems journal April 2022
The role of plant input physical-chemical properties, and microbial and soil chemical diversity on the formation of particulate and mineral-associated organic matter journal May 2022
Increasing contribution of microbial residues to soil organic carbon in grassland restoration chronosequence journal July 2022
Where and why do particulate organic matter (POM) and mineral-associated organic matter (MAOM) differ among diverse soils? journal September 2022
Soil organic carbon sourcing variance in the rhizosphere vs. non-rhizosphere of two mycorrhizal tree species journal January 2023
Microscale spatial distribution and soil organic matter persistence in top and subsoil journal March 2023
Aligning theoretical and empirical representations of soil carbon-to-nitrogen stoichiometry with process-based terrestrial biogeochemistry models journal February 2024
Cation Binding by Humic Substances book August 2009
Simple Plant and Microbial Exudates Destabilize Mineral-Associated Organic Matter via Multiple Pathways journal February 2021
Direct Evidence for Temporal Molecular Fractionation of Dissolved Organic Matter at the Iron Oxyhydroxide Interface journal December 2018
Desorption of Humic Acids from an Iron Oxide Surface journal September 1998
The capacity of soils to preserve organic C and N by their association with clay and silt particles journal January 1997
Stabilization mechanisms of soil organic matter: Implications for C-saturation of soils journal January 2002
Arctic Soil Governs Whether Climate Change Drives Global Losses or Gains in Soil Carbon journal December 2019
A Comparison of Linear Conventional and Nonlinear Microbial Models for Simulating Pulse Dynamics of Soil Heterotrophic Respiration in a Semi‐Arid Grassland journal May 2021
Twenty Years of Progress, Challenges, and Opportunities in Measuring and Understanding Soil Respiration journal February 2024
Microbial Models for Simulating Soil Carbon Dynamics: A Review journal August 2023
Climatic, edaphic, and biotic controls over storage and turnover of carbon in soils journal September 1994
Mycorrhiza and Litter Decomposition journal September 1971
Temperature sensitivity of soil carbon decomposition and feedbacks to climate change journal March 2006
Stability of organic carbon in deep soil layers controlled by fresh carbon supply journal November 2007
Persistence of soil organic matter as an ecosystem property journal October 2011
The contentious nature of soil organic matter journal November 2015
The temperature response of soil microbial efficiency and its feedback to climate journal January 2013
Global soil carbon projections are improved by modelling microbial processes journal July 2013
Microbe-driven turnover offsets mineral-mediated storage of soil carbon under elevated CO2 journal November 2014
Weaker soil carbon–climate feedbacks resulting from microbial and abiotic interactions journal November 2014
Mineral protection of soil carbon counteracted by root exudates journal March 2015
Higher climatological temperature sensitivity of soil carbon in cold than warm climates journal October 2017
Direct evidence for microbial-derived soil organic matter formation and its ecophysiological controls journal November 2016
Social dynamics within decomposer communities lead to nitrogen retention and organic matter build-up in soils journal December 2015
Formation of soil organic matter via biochemical and physical pathways of litter mass loss journal September 2015
The importance of anabolism in microbial control over soil carbon storage journal July 2017
Microbial community-level regulation explains soil carbon responses to long-term litter manipulations journal October 2017
Organo–organic and organo–mineral interfaces in soil at the nanometer scale journal November 2020
Microbial formation of stable soil carbon is more efficient from belowground than aboveground input journal November 2018
Dynamic interactions at the mineral–organic matter interface journal May 2021
Polyketide biosynthesis: a millennium review journal January 2001
Study of free and occluded particulate organic matter in soils by solid state 13C Cp/MAS NMR spectroscopy and scanning electron microscopy journal January 1994
The effect of aggregate disruption on the activity of microorganisms in the soil journal January 1957
What is recalcitrant soil organic matter? journal January 2010
The chemistry and nature of protected carbon in soil journal January 1996
Genome of an arbuscular mycorrhizal fungus provides insight into the oldest plant symbiosis journal November 2013
Enumerating soil biodiversity journal August 2023
Probing the nature of soil organic matter journal September 2021
Brown Ground: A Soil Carbon Analogue for the Green World Hypothesis? journal May 2006
Factors of Soil Formation journal January 1941
Feedback control of the rate of peat formation journal June 2001
Microbial trait multifunctionality drives soil organic matter formation potential preprint May 2024
Microbial community dynamics alleviate stoichiometric constraints during litter decay journal March 2014
Feedbacks between plant N demand and rhizosphere priming depend on type of mycorrhizal association journal July 2017
Evaluating litter decomposition in earth system models with long-term litterbag experiments: an example using the Community Land Model version 4 (CLM4) journal October 2012
The Microbial Efficiency-Matrix Stabilization (MEMS) framework integrates plant litter decomposition with soil organic matter stabilization: do labile plant inputs form stable soil organic matter? journal February 2013
Thermodynamic theory explains the temperature optima of soil microbial processes and high Q 10 values at low temperatures journal May 2014
Litter type control on soil C and N stabilization dynamics in a temperate forest journal December 2014
Integrating plant litter quality, soil organic matter stabilization, and the carbon saturation concept journal July 2015
Dual, differential isotope labeling shows the preferential movement of labile plant constituents into mineral-bonded soil organic matter journal March 2016
Microbial control of soil organic matter mineralization responses to labile carbon in subarctic climate change treatments journal April 2016
The muddle of ages, turnover, transit, and residence times in the carbon cycle journal November 2016
Plant litter chemistry alters the content and composition of organic carbon associated with soil mineral and aggregate fractions in invaded ecosystems journal July 2017
Soil carbon cycling proxies: Understanding their critical role in predicting climate change feedbacks journal November 2017
Nitrogen limitation of decomposition and decay: How can it occur? journal December 2017
Tree mycorrhizal type predicts within-site variability in the storage and distribution of soil organic matter journal April 2018
Pathways of mineral‐associated soil organic matter formation: Integrating the role of plant carbon source, chemistry, and point of entry journal November 2018
Conceptualizing soil organic matter into particulate and mineral‐associated forms to address global change in the 21st century journal November 2019
Microbial dynamics and soil physicochemical properties explain large‐scale variations in soil organic carbon journal February 2020
Embracing a new paradigm for temperature sensitivity of soil microbes journal March 2020
From pools to flow: The PROMISE framework for new insights on soil carbon cycling in a changing world journal October 2020
Stochastic and deterministic interpretation of pool models journal March 2021
I n ‐N‐O ut: A hierarchical framework to understand and predict soil carbon storage and nitrogen recycling journal September 2021
Beyond bulk: Density fractions explain heterogeneity in global soil carbon abundance and persistence journal December 2021
Hyphae move matter and microbes to mineral microsites: Integrating the hyphosphere into conceptual models of soil organic matter stabilization journal January 2022
More soil organic carbon is sequestered through the mycelium pathway than through the root pathway under nitrogen enrichment in an alpine forest journal June 2022
Microbial community shifts correspond with suppression of decomposition 25 years after liming of acidic forest soils journal July 2022
Clarifying the evidence for microbial‐ and plant‐derived soil organic matter, and the path toward a more quantitative understanding journal September 2022
No detectable upper limit of mineral‐associated organic carbon in temperate agricultural soils journal June 2023
Response to: “The robust concept of mineral‐associated organic matter saturation: A letter to Begill et al. (2023)” journal August 2023
The robust concept of mineral‐associated organic matter saturation: A letter to Begill et al., 2023 journal August 2023
Distinct, direct and climate‐mediated environmental controls on global particulate and mineral‐associated organic carbon storage journal December 2023
Pathways of soil organic matter formation from above and belowground inputs in a Sorghum bicolor bioenergy crop journal February 2019
Fate of particulate organic matter in soil aggregates during cultivation journal December 1996
Temperature and soil organic matter decomposition rates - synthesis of current knowledge and a way forward journal August 2011
The mycorrhizal-associated nutrient economy: a new framework for predicting carbon-nutrient couplings in temperate forests journal April 2013
Synthesis and modeling perspectives of rhizosphere priming journal August 2013
Plant litter chemistry and microbial priming regulate the accrual, composition and stability of soil carbon in invaded ecosystems journal April 2014
Revisiting the ‘Gadgil effect’: do interguild fungal interactions control carbon cycling in forest soils? journal September 2015
Modelling the influence of ectomycorrhizal decomposition on plant nutrition and soil carbon sequestration in boreal forest ecosystems journal October 2016
Fenton reaction facilitates organic nitrogen acquisition by an ectomycorrhizal fungus journal January 2018
Exploring the role of ectomycorrhizal fungi in soil carbon dynamics journal February 2019
Root effects on soil organic carbon: a double‐edged sword journal December 2020
Trait‐based assembly of arbuscular mycorrhizal fungal communities determines soil carbon formation and retention journal May 2023
Plant rhizodeposition: A key factor for soil organic matter formation in stable fractions journal April 2021
Interactions and Self-Organization in the Soil-Microbe Complex journal June 2004
The Global Stoichiometry of Litter Nitrogen Mineralization journal August 2008
Roots and Associated Fungi Drive Long-Term Carbon Sequestration in Boreal Forest journal March 2013
Terrestrial Carbon–Cycle Feedback to Climate Warming journal December 2007
Life in Dry Soils: Effects of Drought on Soil Microbial Communities and Processes journal November 2018
Humic Matter in Soil and the Environment: Principles and Controversies book April 2003
Cognitive schema theory in the constructivist debate journal June 1996
Spatial Ecology of Bacteria at the Microscale in Soil journal January 2014
Development of microbial-enzyme-mediated decomposition model parameters through steady-state and dynamic analyses journal January 2013
Sorptive and Desorptive Fractionation of Dissolved Organic Matter by Mineral Soil Matrices journal March 2012
Outline of a Generalized Theory of Soil Genesis journal March 1959
Direct Measurement of Oxygen Profiles and Denitrification Rates in Soil Aggregates1 journal January 1985
Aggregate Structure and Carbon, Nitrogen, and Phosphorus in Native and Cultivated Soils1 journal January 1986
Analysis of Factors Controlling Soil Organic Matter Levels in Great Plains Grasslands1 journal January 1987
Particulate Soil Organic-Matter Changes across a Grassland Cultivation Sequence journal January 1992
Carbon and Nitrogen Distribution in Aggregates from Cultivated and Native Grassland Soils journal July 1993
Organic Matter–Surface Area Relationships in Acid Soils journal January 2001
The Relationship between Carbon Input, Aggregation, and Soil Organic Carbon Stabilization in Sustainable Cropping Systems journal January 2005
Bacterial and Fungal Contributions to Carbon Sequestration in Agroecosystems journal January 2006
Soil Carbon Saturation: Linking Concept and Measurable Carbon Pools journal January 2008
Decomposition of Carbon-14-Labeled Organic Amendments and Humic Acids in a Long-Term Field Experiment journal May 2009
Soil Aggregation and Soil Organic Carbon Stabilization: Effects of Management in Semiarid Mediterranean Agroecosystems journal January 2009
Soil Aggregate Destruction by Ultrasonication Increases Soil Organic Matter Mineralization and Mobility journal January 2012
Litter and Root Manipulations Provide Insights into Soil Organic Matter Dynamics and Stability journal January 2014
A General Model for Soil Organic Matter Dynamics: Sensitivity to Litter Chemistry, Texture and Management book September 1994
Habitable Pore Space and Microbial Trophic Interactions journal November 1980
Climate, Leaf Litter Chemistry and Leaf Litter Decomposition in Terrestrial Ecosystems: A Triangular Relationship journal September 1997
Beyond microbial carbon use efficiency preprint August 2023
Microbial control over carbon cycling in soil journal January 2012
Trait-Based Representation of Biological Nitrification: Model Development, Testing, and Predicted Community Composition journal January 2012
Modeling adaptation of carbon use efficiency in microbial communities journal October 2014
Is There Anybody Out There? Substrate Availability Controls Microbial Activity outside of Hotspots in Subsoils journal June 2018
Sorptive fractionation of dissolved organic nitrogen and amino acids onto fine sediments within the Amazon Basin journal November 2001
A new model of Holocene peatland net primary production, decomposition, water balance, and peat accumulation journal January 2010