A new, offer versus demand, modelling approach to assess the impact of micro-organisms spatio-temporal population dynamics on soil organic matter decomposition rates

2007 ◽  
Vol 209 (2-4) ◽  
pp. 301-313 ◽  
Author(s):  
C. Cambier ◽  
M. Bousso ◽  
D. Masse ◽  
E. Perrier
Keyword(s):  
Population Dynamics ◽  
Organic Matter ◽  
Soil Organic Matter ◽  
Decomposition Rates ◽  
Soil Organic Matter Decomposition ◽  
Demand Modelling ◽  
Spatio Temporal ◽  
Micro Organisms ◽  
The Impact ◽  
Modelling Approach

scholarly journals Models of soil organic matter decomposition: the SOILR package, version 1.0

2012 ◽  
Vol 5 (2) ◽  
pp. 993-1039 ◽  
Author(s):  
C. A. Sierra ◽  
M. Müller ◽  
S. E. Trumbore
Keyword(s):  
Organic Matter ◽  
Soil Organic Matter ◽  
Organic Matter Decomposition ◽  
Important Process ◽  
Decomposition Rates ◽  
Modeling Framework ◽  
Soil Organic Matter Decomposition ◽  
The Earth ◽  
Decomposition Models ◽  
Model Structures

Abstract. Organic matter decomposition is a very important process within the Earth System because it controls the rates of mineralization of carbon and other biogeochemical elements, determining their flux to the atmosphere and the hydrosphere. SOILR is a modeling framework that contains a library of functions and tools for modeling soil organic matter decomposition under the R environment for computing. It implements a variety of model structures and tools to represent carbon storage and release from soil organic matter. In SOILR organic matter decomposition is represented as a linear system of ordinary differential equations that generalizes the structure of most compartment-based decomposition models. A variety of functions is also available to represent environmental effects on decomposition rates. This document presents the conceptual basis for the functions implemented in the package. It is complementary to the help pages released with the software.

scholarly journals The Impact of Redox Fluctuations on Soil Organic Matter Decomposition in Tropical Forest Soils

2020 ◽  
Author(s):  
Amrita Bhattacharyya ◽  
Ashley Campbell ◽  
Rachel Hestrin ◽  
Yang Lin ◽  
Malak Tfaily ◽  
...  
Keyword(s):  
Organic Matter ◽  
Soil Organic Matter ◽  
Tropical Forest ◽  
Forest Soils ◽  
Organic Matter Decomposition ◽  
Soil Organic Matter Decomposition ◽  
The Impact

scholarly journals Models of soil organic matter decomposition: the SoilR package, version 1.0

2012 ◽  
Vol 5 (4) ◽  
pp. 1045-1060 ◽  
Author(s):  
C. A. Sierra ◽  
M. Müller ◽  
S. E. Trumbore
Keyword(s):  
Organic Matter ◽  
Soil Organic Matter ◽  
Organic Matter Decomposition ◽  
Important Process ◽  
Decomposition Rates ◽  
Modeling Framework ◽  
Soil Organic Matter Decomposition ◽  
The Earth ◽  
Decomposition Models ◽  
Model Structures

Abstract. Soil organic matter decomposition is a very important process within the Earth system because it controls the rates of mineralization of carbon and other biogeochemical elements, determining their flux to the atmosphere and the hydrosphere. SoilR is a modeling framework that contains a library of functions and tools for modeling soil organic matter decomposition under the R environment for computing. It implements a variety of model structures and tools to represent carbon storage and release from soil organic matter. In SoilR, organic matter decomposition is represented as a linear system of ordinary differential equations that generalizes the structure of most compartment-based decomposition models. A variety of functions is also available to represent environmental effects on decomposition rates. This document presents the conceptual basis for the functions implemented in the package. It is complementary to the help pages released with the software.

Temperature and soil organic matter decomposition rates - synthesis of current knowledge and a way forward

2011 ◽  
Vol 17 (11) ◽  
pp. 3392-3404 ◽  
Author(s):  
Richard T. Conant ◽  
Michael G. Ryan ◽  
Göran I. Ågren ◽  
Hannah E. Birge ◽  
Eric A. Davidson ◽  
...  
Keyword(s):  
Organic Matter ◽  
Soil Organic Matter ◽  
Current Knowledge ◽  
Organic Matter Decomposition ◽  
Decomposition Rates ◽  
Soil Organic Matter Decomposition

Design and test of a generic cohort model of soil organic matter decomposition: the SOMKO model

2001 ◽  
Vol 10 (6) ◽  
pp. 639-660 ◽  
Author(s):  
Jacques Gignoux ◽  
Joanna House ◽  
David Hall ◽  
Dominique Masse ◽  
Hassan B. Nacro ◽  
...  
Keyword(s):  
Organic Matter ◽  
Soil Organic Matter ◽  
Organic Matter Decomposition ◽  
Cohort Model ◽  
Soil Organic Matter Decomposition

scholarly journals ORGANIC CARBON DYNAMICS IN GRASSLAND SOILS. 1. BACKGROUND INFORMATION AND COMPUTER SIMULATION

1981 ◽  
Vol 61 (2) ◽  
pp. 185-201 ◽  
Author(s):  
J. A. VAN VEEN ◽  
E. A. PAUL
Keyword(s):  
Organic Matter ◽  
Soil Organic Matter ◽  
Experimental Studies ◽  
Decay Rates ◽  
Background Information ◽  
Plant Residues ◽  
Decomposition Rates ◽  
Straw Decomposition ◽  
Soil Biomass ◽  
The World

The decomposition rates of 14C-labelled plant residues in different parts of the world were characterized and mathematically simulated. The easily decomposable materials, cellulose and hemicellulose, were described as being decomposed directly by the soil biomass; the lignin fraction of aboveground residues and the resistant portion of the roots entered a decomposable native soil organic matter. Here it could be decomposed by the soil biomass or react with other soil constituents in the formation of more recalcitrant soil organic matter. The transformation rates were considered to be independent of biomass size (first–order). Data from 14C plant residue incorporation studies which yielded net decomposition rates of added materials and from carbon dating of the recalcitrant soil organic matter were transformed to gross decomposition rate constants for three soil depths. The model adequately described soil organic matter transformations under native grassland and the effect of cultivation on organic matter levels. Correction for microbial growth and moisture and temperature variations showed that the rate of wheat straw decomposition, based on a full year in the field in southern Saskatchewan, was 0.05 that under optimal laboratory conditions. The relative decay rates for plant residues during the summer months of the North American Great Plains was 0.1 times that of the laboratory. Comparison with data from other parts of the world showed an annual relative rate of 0.12 for straw decomposition in England, whereas gross decomposition rates in Nigeria were 0.5 those of laboratory rates. Both the decomposable and recalcitrant organic matter were found to be affected by the extent of physical protection within the soil. The extent of protection was simulated and compared to data from experimental studies on the persistence of 14C-labelled amino acids in soil. The extent of protection influenced the steady-state levels of soil carbon upon cultivation more than did the original decomposition rates of the plant residues.

scholarly journals Spatial control of carbon dynamics in soil by microbial decomposer communities

2020 ◽  
Author(s):  
Holger Pagel ◽  
Björn Kriesche ◽  
Marie Uksa ◽  
Christian Poll ◽  
Ellen Kandeler ◽  
...  
Keyword(s):  
Organic Matter ◽  
Spatial Distribution ◽  
Soil Organic Matter ◽  
Distribution Patterns ◽  
Microbial Succession ◽  
Thin Sections ◽  
Spatial Control ◽  
Soil Organic Matter Turnover ◽  
Microbial Decomposer ◽  
Modelling Approach

<p>Trait-based models have improved the understanding and prediction of soil organic matter dynamics in terrestrial ecosystems. Microscopic observations and pore scale models are now increasingly used to quantify and elucidate the effects of soil heterogeneity on microbial processes. Combining both approaches provides a promising way to accurately capture spatial microbial-physicochemical interactions and to predict overall system behavior. The present study aims to quantify controls on carbon (C) turnover in soil due to the mm-scale spatial distribution of microbial decomposer communities in soil. A new spatially explicit trait-based model (SpatC) has been developed that captures the combined dynamics of microbes and soil organic matter (SOM) by taking into account microbial life-history traits and SOM accessibility. Samples of spatial distributions of microbes at µm-scale resolution were generated using a spatial statistical model based on Log Gaussian Cox Processes which was originally used to analyze distributions of bacterial cells in soil thin sections. These µm-scale distribution patterns were then aggregated to derive distributions of microorganisms at mm-scale. We performed Monte-Carlo simulations with microbial distributions that differ in mm-scale spatial heterogeneity and functional community composition (oligotrophs, copiotrophs and copiotrophic cheaters). Our modelling approach revealed that the spatial distribution of soil microorganisms triggers spatiotemporal patterns of C utilization and microbial succession. Only strong spatial clustering of decomposer communities induces a diffusion limitation of the substrate supply on the microhabitat scale, which significantly reduces the total decomposition of C compounds and the overall microbial growth. However, decomposer communities act as functionally redundant microbial guilds with only slight changes in C utilization. The combined statistical and process-based modelling approach derives distribution patterns of microorganisms at the mm-scale from microbial biogeography at microhabitat scale (µm) and quantifies the emergent macroscopic (cm) microbial and C dynamics. Thus, it effectively links observable process dynamics to the spatial control by microbial communities. Our study highlights a powerful approach that can provide further insights into the biological control of soil organic matter turnover.</p>

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