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Title: Sub-micron level investigation reveals the inaccessibility of stabilized carbon in soil microaggregates

Journal Article · · Scientific Reports
 [1]; ORCiD logo [1];  [1]; ORCiD logo [2];  [3];  [2];  [2]; ORCiD logo [4];  [1];  [5];  [6]
  1. Kansas State Univ., Manhattan, KS (United States). Dept. of Agronomy
  2. Canadian Light Sources, Inc., Saskatoon, SK (Canada)
  3. Kansas Dept. of Health and Environment, Topeka, KS (United States)
  4. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Advanced Light Source (ALS)
  5. Federal Univ. of Santa Maria, Santa Maria, Rio Grande do Sul (Brazil)
  6. Univ. of Cruz Alta, Rio Grande do Sul (Brazil). CCGL Tec

Direct evidence-based approaches are vital to evaluating newly proposed theories on the persistence of soil organic carbon and establishing the contributions of abiotic and biotic controls. Our primary goal was to directly identify the mechanisms of organic carbon stabilization in native-state, free soil microaggregates without disrupting the aggregate microstructure using scanning transmission x-ray microscopy coupled with near edge x-ray absorption fine structure spectroscopy (STXM-NEXAFS). The influence of soil management practices on microaggregate associated-carbon was also assessed. Free, stable soil microaggregates were collected from a tropical agro-ecosystem in Cruz Alta, Brazil. The long-term experimental plots (>25 years) comparing two tillage systems: no-till and till with a complex crop rotation. Based on simultaneously collected multi-elemental associations and speciation, STXM-NEXAFS successfully provided submicron level information on organo-mineral associations. Simple organic carbon sources were found preserved within microaggregates; some still possessing original morphology, suggesting that their stabilization was not entirely governed by the substrate chemistry. Bulk analysis showed higher and younger organic carbon in microaggregates from no-till systems than tilled systems. These results provide direct submicron level evidence that the surrounding environment is involved in stabilizing organic carbon, thus favoring newly proposed concepts on the persistence of soil organic carbon.

Research Organization:
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
Sponsoring Organization:
USDOE Office of Science (SC)
Grant/Contract Number:
AC02-05CH11231
OSTI ID:
1542344
Journal Information:
Scientific Reports, Vol. 8, Issue 1; ISSN 2045-2322
Publisher:
Nature Publishing GroupCopyright Statement
Country of Publication:
United States
Language:
English

References (143)

Fractionation of Organic Matter Due to Reaction with Ferrihydrite: Coprecipitation versus Adsorption journal January 2011
Soil carbon sequestration to mitigate climate change journal November 2004
Mineralogical impact on organic nitrogen across a long-term soil chronosequence (0.3–4100kyr) journal April 2010
ATHENA , ARTEMIS , HEPHAESTUS : data analysis for X-ray absorption spectroscopy using IFEFFIT journal June 2005
Nanoscale Biogeocomplexity of the Organomineral Assemblage in Soil journal January 2006
Multi-elemental scanning transmission X-ray microscopy–near edge X-ray absorption fine structure spectroscopy assessment of organo–mineral associations in soils from reduced environments journal January 2015
Nitrogen K -edge XANES – an overview of reference compounds used to identify `unknown' organic nitrogen in environmental samples journal October 2007
Green Rust Formation during Fe(II) Oxidation by the Nitrate-Reducing Acidovorax sp. Strain BoFeN1 journal January 2012
Carbon Depletion by Plowing and its Restoration by No-Till Cropping Systems in Oxisols of Subtropical and Tropical Agro-Ecoregions in Brazil: CARBON DEPLETION BY PLOWING AND ITS RESTORATION BY NO-TILL SYSTEMS journal May 2013
Mechanisms of Carbon Sequestration in Soil Aggregates journal November 2004
Advantages of soft X-ray absorption over TEM-EELS for solid carbon studies––a comparative study on diesel soot with EELS and NEXAFS journal January 2005
Interferometer-controlled scanning transmission X-ray microscopes at the Advanced Light Source journal February 2003
Innershell Absorption Spectroscopy of Amino Acids journal April 2002
Mineral protection of soil carbon counteracted by root exudates journal March 2015
Protection of organic carbon in soil microaggregates via restructuring of aggregate porosity and filling of pores with accumulating organic matter journal October 2008
Protection of soil organic C and N in temperate and tropical soils: effect of native and agroecosystems journal November 2008
Soil organic matter, biota and aggregation in temperate and tropical soils - Effects of no-tillage journal November 2002
Interfacial layer on archaeological mild steel corroded in carbonated anoxic environments studied with coupled micro and nano probes journal November 2014
What is recalcitrant soil organic matter? journal January 2010
Humic Substances in Soils:  Are They Really Chemically Distinct? journal August 2006
Chemical characteristics of fulvic acids from Arctic surface waters: Microbial contributions and photochemical transformations: CHARACTERISTICS OF ARCTIC FULVIC ACIDS journal December 2007
Formation and properties of Fe(II)Fe(III) hydroxy-carbonate and its possible significance in soil formation journal December 1980
Quantitative mapping of chlorhexidine in natural river biofilms journal October 2006
Speciation and Quantitative Mapping of Metal Species in Microbial Biofilms Using Scanning Transmission X-ray Microscopy journal March 2006
Relationship of soil organic matter dynamics to physical protection and tillage journal February 2000
Soft X-ray Spectromicroscopy Study of Mineral-Organic Matter Associations in Pasture Soil Clay Fractions journal May 2014
Stability of coprecipitated natural humic acid and ferrous iron under oxidative conditions journal April 2015
Validating the Scalability of Soft X-ray Spectromicroscopy for Quantitative Soil Ecology and Biogeochemistry Research journal January 2015
Biodegradation of forest floor organic matter bound to minerals via different binding mechanisms journal May 2007
Developing a molecular picture of soil organic matter–mineral interactions by quantifying organo–mineral binding journal August 2017
Scanning Transmission X-Ray, Laser Scanning, and Transmission Electron Microscopy Mapping of the Exopolymeric Matrix of Microbial Biofilms journal September 2003
Carbon stock and its compartments in a subtropical oxisol under long-term tillage and crop rotation systems journal June 2011
Effect of organic matter applications on 13 C-NMR spectra of humic acids of soil journal June 2008
Nanoscale evidence of contrasted processes for root-derived organic matter stabilization by mineral interactions depending on soil depth journal June 2015
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
Direct evidence for microbial-derived soil organic matter formation and its ecophysiological controls journal November 2016
Precipitation of amorphous CaCO3 (aragonite-like) by cyanobacteria: A STXM study of the influence of EPS on the nucleation process journal July 2009
Persistence of soil organic matter as an ecosystem property journal October 2011
Sorptive stabilization of organic matter by microporous goethite: sorption into small pores vs. surface complexation journal February 2007
Mineral Availability as a Key Regulator of Soil Carbon Storage journal April 2017
Characterization and structural modelling of humic substances in field soil displaying significant differences from previously proposed structures journal August 2008
Nitrogen-rich microbial products provide new organo-mineral associations for the stabilization of soil organic matter journal December 2017
Crop rotational diversity enhances belowground communities and functions in an agroecosystem journal May 2015
Soft X-ray spectroscopy from image sequences with sub-100 nm spatial resolution journal February 2000
Cluster analysis of soft X-ray spectromicroscopy data journal July 2004
Soil macroaggregate turnover and microaggregate formation: a mechanism for C sequestration under no-tillage agriculture journal December 2000
Biodegradation of ferrihydrite-associated organic matter journal January 2014
Spatial complexity of soil organic matter forms at nanometre scales journal March 2008
Review on iron availability in soil: interaction of Fe minerals, plants, and microbes journal November 2013
Alteration of Biochar Carbon Chemistry during Soil Incubations: SR-FTIR and NEXAFS Investigation journal January 2014
Organic carbon distribution, speciation, and elemental correlations within soil microaggregates: Applications of STXM and NEXAFS spectroscopy journal November 2007
Combining Biomarker with Stable Isotope Analyses for Assessing the Transformation and Turnover of Soil Organic Matter book January 2008
Effects of mineral and monocarboxylic acids on the molecular association of dissolved humic substances journal December 1999
Soil aggregate formation and the accrual of particulate and mineral-associated organic matter journal April 1996
Chemical composition of the organic matter in forest soils: The humus layer journal January 1988
The distribution of anoxic volume in a fractal model of soil journal March 1999
Soft X-ray spectromicroscopy of nickel sorption in a natural river biofilm journal September 2009
Nanoscale detection of organic signatures in carbonate microbialites journal June 2006
Microaggregates in soils other January 2018
Near-edge X-ray absorption fine structure (NEXAFS) spectroscopy for mapping nano-scale distribution of organic carbon forms in soil: Application to black carbon particles: CARBON NEXAFS SPECTROSCOPY OF BLACK CARBON PARTICLES journal February 2005
Biogeochemistry of mineral–organic associations across a long-term mineralogical soil gradient (0.3–4100kyr), Hawaiian Islands journal April 2009
Organic matter and water-stable aggregates in soils journal June 1982
Old and stable soil organic matter is not necessarily chemically recalcitrant: implications for modeling concepts and temperature sensitivity: SLOW TURNOVER OF LABILE SOIL ORGANIC MATTER journal January 2011
Impact of Tillage and Crop Rotation on Aggregate-Associated Carbon in Two Oxisols journal January 2005
Soft X-ray spectromicroscopy beamline at the CLS: Commissioning results
  • Kaznatcheev, K. V.; Karunakaran, Ch.; Lanke, U. D.
  • Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment, Vol. 582, Issue 1 https://doi.org/10.1016/j.nima.2007.08.083
journal November 2007
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
Sorption of dissolved organic nitrogen by acid subsoil horizons and individual mineral phases journal September 2000
Micro- and nano-environments of carbon sequestration: Multi-element STXM–NEXAFS spectromicroscopy assessment of microbial carbon and mineral associations journal November 2012
Aluminium X-ray absorption Near Edge Structure in model compounds and Earth's surface minerals journal January 1998
Stabilization of Natural Organic Matter by Short-Range-Order Iron Hydroxides journal November 2016
Mineral–Organic Associations: Formation, Properties, and Relevance in Soil Environments book December 2014
How relevant is recalcitrance for the stabilization of organic matter in soils? journal February 2008
Microaggregates in soils journal August 2017
A history of research on the link between (micro)aggregates, soil biota, and soil organic matter dynamics journal September 2004
How does organic matter constrain the nature, size and availability of Fe nanoparticles for biological reduction? journal July 2011
Soil aggregation and carbon sequestration are tightly correlated with the abundance of arbuscular mycorrhizal fungi: results from long-term field experiments journal May 2009
Identification of Distinct Functional Microstructural Domains Controlling C Storage in Soil journal October 2017
Soil Organic Matter Functional Group Composition in Relation to Organic Carbon, Nitrogen, and Phosphorus Fractions in Organically Managed Tomato Fields journal January 2015
Some concepts of soil organic carbon characteristics and mineral interaction from a review of literature journal March 2016
Transformation mechanism of amorphous calcium carbonate into calcite in the sea urchin larval spicule journal November 2008
Overview of the Symposium Proceedings, “Meaningful Pools in Determining Soil Carbon and Nitrogen Dynamics” journal January 2006
Stabilization of organic matter in temperate soils: mechanisms and their relevance under different soil conditions - a review journal August 2006
Aged black carbon identified in marine dissolved organic carbon: AGED BLACK CARBON IN MARINE DOC journal August 2010
Introduction of Soft X-Ray Spectromicroscopy as an Advanced Technique for Plant Biopolymers Research journal March 2015
Examining marine particulate organic matter at sub-micron scales using scanning transmission X-ray microscopy and carbon X-ray absorption near edge structure spectroscopy journal December 2004
Molecular C dynamics downstream: The biochemical decomposition sequence and its impact on soil organic matter structure and function journal October 2008
How relevant is recalcitrance for the stabilization of organic matter in soils? text January 2008
Persistence of soil organic matter as an ecosystem property text January 2011
Chemical composition of the organic matter in forest soils: The humus layer journal January 1988
Carbon Depletion by Plowing and its Restoration by No-Till Cropping Systems in Oxisols of Subtropical and Tropical Agro-Ecoregions in Brazil: CARBON DEPLETION BY PLOWING AND ITS RESTORATION BY NO-TILL SYSTEMS journal May 2013
Aluminium X-ray absorption Near Edge Structure in model compounds and Earth's surface minerals journal January 1998
Mineral–Organic Associations: Formation, Properties, and Relevance in Soil Environments book December 2014
Advantages of soft X-ray absorption over TEM-EELS for solid carbon studies––a comparative study on diesel soot with EELS and NEXAFS journal January 2005
Micro- and nano-environments of carbon sequestration: Multi-element STXM–NEXAFS spectromicroscopy assessment of microbial carbon and mineral associations journal November 2012
Interfacial layer on archaeological mild steel corroded in carbonated anoxic environments studied with coupled micro and nano probes journal November 2014
Biodegradation of forest floor organic matter bound to minerals via different binding mechanisms journal May 2007
Protection of organic carbon in soil microaggregates via restructuring of aggregate porosity and filling of pores with accumulating organic matter journal October 2008
Biogeochemistry of mineral–organic associations across a long-term mineralogical soil gradient (0.3–4100kyr), Hawaiian Islands journal April 2009
Precipitation of amorphous CaCO3 (aragonite-like) by cyanobacteria: A STXM study of the influence of EPS on the nucleation process journal July 2009
Mineralogical impact on organic nitrogen across a long-term soil chronosequence (0.3–4100kyr) journal April 2010
Stability of coprecipitated natural humic acid and ferrous iron under oxidative conditions journal April 2015
Soft X-ray spectromicroscopy beamline at the CLS: Commissioning results
  • Kaznatcheev, K. V.; Karunakaran, Ch.; Lanke, U. D.
  • Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment, Vol. 582, Issue 1 https://doi.org/10.1016/j.nima.2007.08.083
journal November 2007
Molecular C dynamics downstream: The biochemical decomposition sequence and its impact on soil organic matter structure and function journal October 2008
Nanoscale evidence of contrasted processes for root-derived organic matter stabilization by mineral interactions depending on soil depth journal June 2015
A history of research on the link between (micro)aggregates, soil biota, and soil organic matter dynamics journal September 2004
Cluster analysis of soft X-ray spectromicroscopy data journal July 2004
Sorption of naphthalene and phenanthrene by soil humic acids journal February 2001
Stabilization of Natural Organic Matter by Short-Range-Order Iron Hydroxides journal November 2016
Mineral Availability as a Key Regulator of Soil Carbon Storage journal April 2017
Identification of Distinct Functional Microstructural Domains Controlling C Storage in Soil journal October 2017
Electron Microscopy Reveals Structural and Chemical Changes at the Nanometer Scale in the Osteogenesis Imperfecta Murine Pathology journal October 2016
Speciation and Quantitative Mapping of Metal Species in Microbial Biofilms Using Scanning Transmission X-ray Microscopy journal March 2006
Humic Substances in Soils:  Are They Really Chemically Distinct? journal August 2006
Fractionation of Organic Matter Due to Reaction with Ferrihydrite: Coprecipitation versus Adsorption journal January 2011
Green Rust Formation during Fe(II) Oxidation by the Nitrate-Reducing Acidovorax sp. Strain BoFeN1 journal January 2012
Soft X-ray Spectromicroscopy Study of Mineral-Organic Matter Associations in Pasture Soil Clay Fractions journal May 2014
Validating the Scalability of Soft X-ray Spectromicroscopy for Quantitative Soil Ecology and Biogeochemistry Research journal January 2015
Persistence of soil organic matter as an ecosystem property journal October 2011
Direct evidence for microbial-derived soil organic matter formation and its ecophysiological controls journal November 2016
Spatial complexity of soil organic matter forms at nanometre scales journal March 2008
Developing a molecular picture of soil organic matter–mineral interactions by quantifying organo–mineral binding journal August 2017
Effects of mineral and monocarboxylic acids on the molecular association of dissolved humic substances journal December 1999
Soft X-ray spectroscopy from image sequences with sub-100 nm spatial resolution journal February 2000
Soil organic matter, biota and aggregation in temperate and tropical soils - Effects of no-tillage journal November 2002
Nanoscale detection of organic signatures in carbonate microbialites journal June 2006
Transformation mechanism of amorphous calcium carbonate into calcite in the sea urchin larval spicule journal November 2008
Crop rotational diversity enhances belowground communities and functions in an agroecosystem journal May 2015
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
Nitrogen-rich microbial products provide new organo-mineral associations for the stabilization of soil organic matter journal December 2017
Organic matter and water-stable aggregates in soils journal June 1982
Stabilization of organic matter in temperate soils: mechanisms and their relevance under different soil conditions - a review journal August 2006
Effect of organic matter applications on 13 C-NMR spectra of humic acids of soil journal June 2008
Old and stable soil organic matter is not necessarily chemically recalcitrant: implications for modeling concepts and temperature sensitivity: SLOW TURNOVER OF LABILE SOIL ORGANIC MATTER journal January 2011
Soil aggregation and carbon sequestration are tightly correlated with the abundance of arbuscular mycorrhizal fungi: results from long-term field experiments journal May 2009
Soft X-ray spectromicroscopy of nickel sorption in a natural river biofilm journal September 2009
Formation and properties of Fe(II)Fe(III) hydroxy-carbonate and its possible significance in soil formation journal December 1980
Introduction of Soft X-Ray Spectromicroscopy as an Advanced Technique for Plant Biopolymers Research journal March 2015
Microaggregates in soils other January 2018
Structural and Sorption Characteristics of Adsorbed Humic Acid on Clay Minerals journal January 2005
Aggregation and Soil Organic Matter Accumulation in Cultivated and Native Grassland Soils journal January 1998
Nanoscale Biogeocomplexity of the Organomineral Assemblage in Soil journal January 2006
Impact of Tillage and Crop Rotation on Aggregate-Associated Carbon in Two Oxisols journal January 2005
Soil Organic Matter Functional Group Composition in Relation to Organic Carbon, Nitrogen, and Phosphorus Fractions in Organically Managed Tomato Fields journal January 2015