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Title: Unifying soil organic matter formation and persistence frameworks: the MEMS model

Abstract

Soil organic matter (SOM) dynamics in ecosystem-scale biogeochemical models have traditionally been simulated as immeasurable fluxes between conceptually defined pools. This greatly limits how empirical data can be used to improve model performance and reduce the uncertainty associated with their predictions of carbon (C) cycling. Recent advances in our understanding of the biogeochemical processes that govern SOM formation and persistence demand a new mathematical model with a structure built around key mechanisms and biogeochemically relevant pools. Here, we present one approach that aims to address this need. Our new model (MEMS v1.0) is developed from the Microbial Efficiency-Matrix Stabilization framework, which emphasizes the importance of linking the chemistry of organic matter inputs with efficiency of microbial processing and ultimately with the soil mineral matrix, when studying SOM formation and stabilization. Building on this framework, MEMS v1.0 is also capable of simulating the concept of C saturation and represents decomposition processes and mechanisms of physico-chemical stabilization to define SOM formation into four primary fractions. After describing the model in detail, we optimize four key parameters identified through a variance-based sensitivity analysis. Optimization employed soil fractionation data from 154 sites with diverse environmental conditions, directly equating mineral-associated organic matter and particulate organicmore » matter fractions with corresponding model pools. Finally, model performance was evaluated using total topsoil (0–20 cm) C data from 8192 forest and grassland sites across Europe. Despite the relative simplicity of the model, it was able to accurately capture general trends in soil C stocks across extensive gradients of temperature, precipitation, annual C inputs and soil texture. The novel approach that MEMS v1.0 takes to simulate SOM dynamics has the potential to improve our forecasts of how soils respond to management and environmental perturbation. Ensuring these forecasts are accurate is key to effectively informing policy that can address the sustainability of ecosystem services and help mitigate climate change.« less

Authors:
 [1];  [1];  [1];  [1];  [2];  [1]
  1. Colorado State Univ., Fort Collins, CO (United States)
  2. European Commission, Ispra (Italy). Joint Research Centre
Publication Date:
Research Org.:
Colorado State Univ., Fort Collins, CO (United States)
Sponsoring Org.:
USDOE Advanced Research Projects Agency - Energy (ARPA-E)
OSTI Identifier:
1505777
Grant/Contract Number:  
AR0000826
Resource Type:
Accepted Manuscript
Journal Name:
Biogeosciences (Online)
Additional Journal Information:
Journal Name: Biogeosciences (Online); Journal Volume: 16; Journal Issue: 6; Journal ID: ISSN 1726-4189
Publisher:
European Geosciences Union
Country of Publication:
United States
Language:
English
Subject:
54 ENVIRONMENTAL SCIENCES

Citation Formats

Robertson, Andy D., Paustian, Keith, Ogle, Stephen, Wallenstein, Matthew D., Lugato, Emanuele, and Cotrufo, M. Francesca. Unifying soil organic matter formation and persistence frameworks: the MEMS model. United States: N. p., 2019. Web. doi:10.5194/bg-16-1225-2019.
Robertson, Andy D., Paustian, Keith, Ogle, Stephen, Wallenstein, Matthew D., Lugato, Emanuele, & Cotrufo, M. Francesca. Unifying soil organic matter formation and persistence frameworks: the MEMS model. United States. doi:10.5194/bg-16-1225-2019.
Robertson, Andy D., Paustian, Keith, Ogle, Stephen, Wallenstein, Matthew D., Lugato, Emanuele, and Cotrufo, M. Francesca. Mon . "Unifying soil organic matter formation and persistence frameworks: the MEMS model". United States. doi:10.5194/bg-16-1225-2019. https://www.osti.gov/servlets/purl/1505777.
@article{osti_1505777,
title = {Unifying soil organic matter formation and persistence frameworks: the MEMS model},
author = {Robertson, Andy D. and Paustian, Keith and Ogle, Stephen and Wallenstein, Matthew D. and Lugato, Emanuele and Cotrufo, M. Francesca},
abstractNote = {Soil organic matter (SOM) dynamics in ecosystem-scale biogeochemical models have traditionally been simulated as immeasurable fluxes between conceptually defined pools. This greatly limits how empirical data can be used to improve model performance and reduce the uncertainty associated with their predictions of carbon (C) cycling. Recent advances in our understanding of the biogeochemical processes that govern SOM formation and persistence demand a new mathematical model with a structure built around key mechanisms and biogeochemically relevant pools. Here, we present one approach that aims to address this need. Our new model (MEMS v1.0) is developed from the Microbial Efficiency-Matrix Stabilization framework, which emphasizes the importance of linking the chemistry of organic matter inputs with efficiency of microbial processing and ultimately with the soil mineral matrix, when studying SOM formation and stabilization. Building on this framework, MEMS v1.0 is also capable of simulating the concept of C saturation and represents decomposition processes and mechanisms of physico-chemical stabilization to define SOM formation into four primary fractions. After describing the model in detail, we optimize four key parameters identified through a variance-based sensitivity analysis. Optimization employed soil fractionation data from 154 sites with diverse environmental conditions, directly equating mineral-associated organic matter and particulate organic matter fractions with corresponding model pools. Finally, model performance was evaluated using total topsoil (0–20 cm) C data from 8192 forest and grassland sites across Europe. Despite the relative simplicity of the model, it was able to accurately capture general trends in soil C stocks across extensive gradients of temperature, precipitation, annual C inputs and soil texture. The novel approach that MEMS v1.0 takes to simulate SOM dynamics has the potential to improve our forecasts of how soils respond to management and environmental perturbation. Ensuring these forecasts are accurate is key to effectively informing policy that can address the sustainability of ecosystem services and help mitigate climate change.},
doi = {10.5194/bg-16-1225-2019},
journal = {Biogeosciences (Online)},
number = 6,
volume = 16,
place = {United States},
year = {2019},
month = {3}
}

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Works referenced in this record:

The importance of anabolism in microbial control over soil carbon storage
journal, July 2017


Potential of Cometabolic Transformation of Polysaccharides and Lignin in Lignocellulose by Soil Actinobacteria
journal, February 2014


Direct evidence for microbial-derived soil organic matter formation and its ecophysiological controls
journal, November 2016

  • Kallenbach, Cynthia M.; Frey, Serita D.; Grandy, A. Stuart
  • Nature Communications, Vol. 7, Issue 1
  • DOI: 10.1038/ncomms13630

Pathways of mineral‐associated soil organic matter formation: Integrating the role of plant carbon source, chemistry, and point of entry
journal, November 2018

  • Sokol, Noah W.; Sanderman, Jonathan; Bradford, Mark A.
  • Global Change Biology, Vol. 25, Issue 1
  • DOI: 10.1111/gcb.14482

Integrating microbial physiology and physio-chemical principles in soils with the MIcrobial-MIneral Carbon Stabilization (MIMICS) model
journal, January 2014


Interacting Microbe and Litter Quality Controls on Litter Decomposition: A Modeling Analysis
journal, September 2014


Particulate Organic Matter Affects Soil Nitrogen Mineralization under Two Crop Rotation Systems
journal, December 2015


Current developments in soil organic matter modeling and the expansion of model applications: a review
journal, December 2015


Chemical changes to nonaggregated particulate soil organic matter following grassland-to-woodland transition in a subtropical savanna
journal, January 2008

  • Filley, Timothy R.; Boutton, Thomas W.; Liao, Julia D.
  • Journal of Geophysical Research, Vol. 113, Issue G3
  • DOI: 10.1029/2007JG000564

Rates of soil mixing and associated carbon fluxes in a forest versus tilled agricultural field: Implications for modeling the soil carbon cycle
journal, January 2011

  • Yoo, Kyungsoo; Ji, Junling; Aufdenkampe, Anthony
  • Journal of Geophysical Research, Vol. 116, Issue G1
  • DOI: 10.1029/2010JG001304

Predicting long-term patterns of mass loss, nitrogen dynamics, and soil organic matter formation from initial fine litter chemistry in temperate forest ecosystems
journal, October 1990

  • Aber, John D.; Melillo, Jerry M.; McClaugherty, Charles A.
  • Canadian Journal of Botany, Vol. 68, Issue 10
  • DOI: 10.1139/b90-287

The Millennial model: in search of measurable pools and transformations for modeling soil carbon in the new century
journal, December 2017


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


A trait-based approach for modelling microbial litter decomposition
journal, May 2012


Soil-carbon response to warming dependent on microbial physiology
journal, April 2010

  • Allison, Steven D.; Wallenstein, Matthew D.; Bradford, Mark A.
  • Nature Geoscience, Vol. 3, Issue 5
  • DOI: 10.1038/ngeo846

Carbon–Concentration and Carbon–Climate Feedbacks in CMIP5 Earth System Models
journal, August 2013

  • Arora, Vivek K.; Boer, George J.; Friedlingstein, Pierre
  • Journal of Climate, Vol. 26, Issue 15
  • DOI: 10.1175/JCLI-D-12-00494.1

Nitrogen limitation of decomposition and decay: How can it occur?
journal, December 2017

  • Averill, Colin; Waring, Bonnie
  • Global Change Biology, Vol. 24, Issue 4
  • DOI: 10.1111/gcb.13980

Estimating the organic carbon stabilisation capacity and saturation deficit of soils: a New Zealand case study
journal, April 2014


Litter decomposition and organic matter turnover in northern forest soils
journal, August 2000


SOMPROF: A vertically explicit soil organic matter model
journal, May 2011


Thermal adaptation of heterotrophic soil respiration in laboratory microcosms
journal, May 2010


Enzymatic biofilm digestion in soil aggregates facilitates the release of particulate organic matter by sonication
journal, January 2016


Particulate Soil Organic-Matter Changes across a Grassland Cultivation Sequence
journal, January 1992


Using litter chemistry controls on microbial processes to partition litter carbon fluxes with the Litter Decomposition and Leaching (LIDEL) model
journal, September 2016


Maximum rooting depth of vegetation types at the global scale
journal, December 1996

  • Canadell, J.; Jackson, R. B.; Ehleringer, J. B.
  • Oecologia, Vol. 108, Issue 4
  • DOI: 10.1007/BF00329030

Biochemical changes across a carbon saturation gradient: Lignin, cutin, and suberin decomposition and stabilization in fractionated carbon pools
journal, April 2012


Integrating plant litter quality, soil organic matter stabilization, and the carbon saturation concept
journal, July 2015

  • Castellano, Michael J.; Mueller, Kevin E.; Olk, Daniel C.
  • Global Change Biology, Vol. 21, Issue 9
  • DOI: 10.1111/gcb.12982

Formation of soil organic matter via biochemical and physical pathways of litter mass loss
journal, September 2015

  • Cotrufo, M. Francesca; Soong, Jennifer L.; Horton, Andrew J.
  • Nature Geoscience, Vol. 8, Issue 10
  • DOI: 10.1038/ngeo2520

Density fractionation of forest soils: methodological questions and interpretation of incubation results and turnover time in an ecosystem context
journal, March 2007


Soil organic carbon pool changes following land-use conversions
journal, July 2004


Stimulation of microbial extracellular enzyme activities by elevated CO 2 depends on soil aggregate size
journal, June 2009


Soil organic matter turnover is governed by accessibility not recalcitrance
journal, March 2012


Mineral properties, microbes, transport, and plant-input profiles control vertical distribution and age of soil carbon stocks
journal, April 2017


Litter quality impacts short- but not long-term soil carbon dynamics in soil aggregate fractions
journal, April 2011

  • Gentile, Roberta; Vanlauwe, Bernard; Six, Johan
  • Ecological Applications, Vol. 21, Issue 3
  • DOI: 10.1890/09-2325.1

Soil Carbon Saturation Controls Labile and Stable Carbon Pool Dynamics
journal, January 2008

  • Gulde, S.; Chung, H.; Amelung, W.
  • Soil Science Society of America Journal, Vol. 72, Issue 3
  • DOI: 10.2136/sssaj2007.0251

Dual, differential isotope labeling shows the preferential movement of labile plant constituents into mineral-bonded soil organic matter
journal, March 2016

  • Haddix, Michelle L.; Paul, Eldor A.; Cotrufo, M. Francesca
  • Global Change Biology, Vol. 22, Issue 6
  • DOI: 10.1111/gcb.13237

Soil mineral–organic matter–microbe interactions: Impacts on biogeochemical processes and biodiversity in soils
journal, November 2005


A global analysis of root distributions for terrestrial biomes
journal, November 1996

  • Jackson, R. B.; Canadell, J.; Ehleringer, J. R.
  • Oecologia, Vol. 108, Issue 3
  • DOI: 10.1007/BF00333714

The Turnover of soil Organic Matter in some of the Rothamsted Classical Experiments
journal, January 1977


Minerals in the rhizosphere: overlooked mediators of soil nitrogen availability to plants and microbes
journal, June 2018

  • Jilling, Andrea; Keiluweit, Marco; Contosta, Alexandra R.
  • Biogeochemistry, Vol. 139, Issue 2
  • DOI: 10.1007/s10533-018-0459-5

Stabilization of dissolved organic matter by sorption to the mineral soil
journal, July 2005


Are oxygen limitations under recognized regulators of organic carbon turnover in upland soils?
journal, January 2016


Dissolved carbon leaching from soil is a crucial component of the net ecosystem carbon balance: DISSOLVED CARBON LEACHING
journal, January 2011


Modelling C and N dynamics in forest soils with a modified version of the CENTURY model
journal, March 2002


A new conceptual model for the fate of lignin in decomposing plant litter
journal, May 2011


Organo-mineral associations in temperate soils: Integrating biology, mineralogy, and organic matter chemistry
journal, February 2008

  • Kögel-Knabner, Ingrid; Guggenberger, Georg; Kleber, Markus
  • Journal of Plant Nutrition and Soil Science, Vol. 171, Issue 1
  • DOI: 10.1002/jpln.200700048

Adsorption of dissolved organic carbon to mineral soils: A comparison of four isotherm approaches
journal, November 2008


Soil Properties Controlling the Adsorption of Dissolved Organic Carbon to Mineral Soils
journal, January 2009

  • Kothawala, D. N.; Moore, T. R.; Hendershot, W. H.
  • Soil Science Society of America Journal, Vol. 73, Issue 6
  • DOI: 10.2136/sssaj2008.0254

Selective adsorption of dissolved organic matter to mineral soils
journal, November 2012


Priming effects: Interactions between living and dead organic matter
journal, September 2010


Does adding microbial mechanisms of decomposition improve soil organic matter models? A comparison of four models using data from a pulsed rewetting experiment
journal, September 2009


The contentious nature of soil organic matter
journal, November 2015


A model of nitrous oxide evolution from soil driven by rainfall events: 1. Model structure and sensitivity
journal, June 1992

  • Li, Changsheng; Frolking, Steve; Frolking, Tod A.
  • Journal of Geophysical Research: Atmospheres, Vol. 97, Issue D9
  • DOI: 10.1029/92JD00509

Microbial contribution to SOM quantity and quality in density fractions of temperate arable soils
journal, February 2015


Toward more realistic projections of soil carbon dynamics by Earth system models: SOIL CARBON MODELING
journal, January 2016

  • Luo, Yiqi; Ahlström, Anders; Allison, Steven D.
  • Global Biogeochemical Cycles, Vol. 30, Issue 1
  • DOI: 10.1002/2015GB005239

Stabilization of organic matter in temperate soils: mechanisms and their relevance under different soil conditions - a review
journal, August 2006


Modelling how carbon affects soil structure
journal, February 2009


The Global Stoichiometry of Litter Nitrogen Mineralization
journal, August 2008


Modeling coupled enzymatic and solute transport controls on decomposition in drying soils
journal, April 2016


How relevant is recalcitrance for the stabilization of organic matter in soils?
journal, February 2008

  • Marschner, Bernd; Brodowski, Sonja; Dreves, Alexander
  • Journal of Plant Nutrition and Soil Science, Vol. 171, Issue 1
  • DOI: 10.1002/jpln.200700049

Relation between Soil Order and Sorption of Dissolved Organic Carbon in Temperate Subsoils
journal, January 2012

  • Mayes, Melanie A.; Heal, Katherine R.; Brandt, Craig C.
  • Soil Science Society of America Journal, Vol. 76, Issue 3
  • DOI: 10.2136/sssaj2011.0340

Comparative aspects of cycling of organic C, N, S and P through soil organic matter
journal, November 1981


Functional diversity of microbial decomposers facilitates plant coexistence in a plant-microbe-soil feedback model
journal, July 2010

  • Miki, T.; Ushio, M.; Fukui, S.
  • Proceedings of the National Academy of Sciences, Vol. 107, Issue 32
  • DOI: 10.1073/pnas.0914281107

Stabilization of Soil Organic Matter: Association with Minerals or Chemical Recalcitrance?
journal, January 2006


Calculating co-metabolic costs of lignin decay and their impacts on carbon use efficiency
journal, November 2013


Analysis of Factors Controlling Soil Organic Matter Levels in Great Plains Grasslands1
journal, January 1987


Estimating root: shoot ratio and soil carbon inputs in temperate grasslands with the RothC model
journal, August 2016


Isolating organic carbon fractions with varying turnover rates in temperate agricultural soils – A comprehensive method comparison
journal, October 2018


Sensitivity of soil carbon fractions and their specific stabilization mechanisms to extreme soil warming in a subarctic grassland
journal, September 2016

  • Poeplau, Christopher; Kätterer, Thomas; Leblans, Niki I. W.
  • Global Change Biology, Vol. 23, Issue 3
  • DOI: 10.1111/gcb.13491

Influence of fragmentation and bioturbation on the decomposition of 14C-labelled beech leaf litter
journal, January 1991


Persistence of soil organic matter as an ecosystem property
journal, October 2011

  • Schmidt, Michael W. I.; Torn, Margaret S.; Abiven, Samuel
  • Nature, Vol. 478, Issue 7367
  • DOI: 10.1038/nature10386

Measuring microbial biomass carbon by direct extraction – Comparison with chloroform fumigation-extraction
journal, November 2012


Model structure and parameter identification of soil organic matter models
journal, November 2015


A modified F-test for evaluating model performance by including both experimental and simulation uncertainties
journal, June 2018


Carbon use efficiency of microbial communities: stoichiometry, methodology and modelling
journal, April 2013

  • Sinsabaugh, Robert L.; Manzoni, Stefano; Moorhead, Daryl L.
  • Ecology Letters, Vol. 16, Issue 7
  • DOI: 10.1111/ele.12113

A comparison of the performance of nine soil organic matter models using datasets from seven long-term experiments
journal, December 1997


Global sensitivity indices for nonlinear mathematical models and their Monte Carlo estimates
journal, February 2001


Solving Differential Equations in R : Package deSolve
journal, January 2010

  • Soetaert, Karline; Petzoldt, Thomas; Setzer, R. Woodrow
  • Journal of Statistical Software, Vol. 33, Issue 9
  • DOI: 10.18637/jss.v033.i09

A new conceptual model on the fate and controls of fresh and pyrolized plant litter decomposition
journal, February 2015

  • Soong, Jennifer L.; Parton, William J.; Calderon, Francisco
  • Biogeochemistry, Vol. 124, Issue 1-3
  • DOI: 10.1007/s10533-015-0079-2

Soil microarthropods support ecosystem productivity and soil C accrual: Evidence from a litter decomposition study in the tallgrass prairie
journal, January 2016


Soil carbon saturation: concept, evidence and evaluation
journal, August 2007

  • Stewart, Catherine E.; Paustian, Keith; Conant, Richard T.
  • Biogeochemistry, Vol. 86, Issue 1
  • DOI: 10.1007/s10533-007-9140-0

Soil Carbon Saturation: Linking Concept and Measurable Carbon Pools
journal, January 2008

  • Stewart, Catherine E.; Plante, Alain F.; Paustian, Keith
  • Soil Science Society of America Journal, Vol. 72, Issue 2
  • DOI: 10.2136/sssaj2007.0104

The knowns, known unknowns and unknowns of sequestration of soil organic carbon
journal, January 2013

  • Stockmann, Uta; Adams, Mark A.; Crawford, John W.
  • Agriculture, Ecosystems & Environment, Vol. 164
  • DOI: 10.1016/j.agee.2012.10.001

Trends and methodological impacts in soil CO2 efflux partitioning: A metaanalytical review
journal, June 2006


Distribution of light and heavy fractions of soil organic carbon as related to land use and tillage practice
journal, January 2007


Integrating microbial ecology into ecosystem models: challenges and priorities
journal, September 2011

  • Treseder, Kathleen K.; Balser, Teri C.; Bradford, Mark A.
  • Biogeochemistry, Vol. 109, Issue 1-3
  • DOI: 10.1007/s10533-011-9636-5

Sources and Transformation of Dissolved Organic Carbon in the Harp Lake Forested Catchment: The Role of Soils
journal, January 1992


Methods for Dietary Fiber, Neutral Detergent Fiber, and Nonstarch Polysaccharides in Relation to Animal Nutrition
journal, October 1991


SOM fractionation methods: Relevance to functional pools and to stabilization mechanisms
journal, September 2007

  • von Lützow, Margit; Kögel-Knabner, Ingrid; Ekschmitt, Klemens
  • Soil Biology and Biochemistry, Vol. 39, Issue 9
  • DOI: 10.1016/j.soilbio.2007.03.007

A trait-based framework for predicting when and where microbial adaptation to climate change will affect ecosystem functioning
journal, September 2011


Development of microbial-enzyme-mediated decomposition model parameters through steady-state and dynamic analyses
journal, January 2013

  • Wang, Gangsheng; Post, Wilfred M.; Mayes, Melanie A.
  • Ecological Applications, Vol. 23, Issue 1
  • DOI: 10.1890/12-0681.1

Differences in fungal and bacterial physiology alter soil carbon and nitrogen cycling: insights from meta-analysis and theoretical models
journal, May 2013

  • Waring, Bonnie G.; Averill, Colin; Hawkes, Christine V.
  • Ecology Letters, Vol. 16, Issue 7
  • DOI: 10.1111/ele.12125

Explicitly representing soil microbial processes in Earth system models: Soil microbes in earth system models
journal, October 2015

  • Wieder, William R.; Allison, Steven D.; Davidson, Eric A.
  • Global Biogeochemical Cycles, Vol. 29, Issue 10
  • DOI: 10.1002/2015GB005188

Global soil carbon projections are improved by modelling microbial processes
journal, July 2013

  • Wieder, William R.; Bonan, Gordon B.; Allison, Steven D.
  • Nature Climate Change, Vol. 3, Issue 10
  • DOI: 10.1038/nclimate1951

A Modeling Approach to Determining the Relationship Between Erosion and Soil Productivity
journal, January 1984


Substrate and environmental controls on microbial assimilation of soil organic carbon: a framework for Earth system models
journal, February 2014

  • Xu, Xiaofeng; Schimel, Joshua P.; Thornton, Peter E.
  • Ecology Letters, Vol. 17, Issue 5
  • DOI: 10.1111/ele.12254

Measured soil organic matter fractions can be related to pools in the RothC model
journal, June 2007


    Works referencing / citing this record:

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    Constraining Carbon and Nutrient Flows in Soil With Ecological Stoichiometry
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    • Frontiers in Ecology and Evolution, Vol. 7
    • DOI: 10.3389/fevo.2019.00382