Simulating microbial degradation of organic matter in a simple porous system using the 3-D diffusion-based model MOSAIC
2014
Monga, O. | Garnier, Patricia | Pot-Genty, Valerie | Coucheney, E. | Nunan, N. | Otten, W. | Chenu, Claire | Université de Yaoundé I (UY1) | Environnement et Grandes Cultures (EGC) ; Institut National de la Recherche Agronomique (INRA)-AgroParisTech | Biogéochimie et écologie des milieux continentaux (Bioemco) ; École normale supérieure - Paris (ENS-PSL) ; Université Paris Sciences et Lettres (PSL)-Université Paris Sciences et Lettres (PSL)-Institut de Recherche pour le Développement (IRD)-Institut National de la Recherche Agronomique (INRA)-Université Pierre et Marie Curie - Paris 6 (UPMC)-AgroParisTech-Centre National de la Recherche Scientifique (CNRS) | Abertay University [Dundee] | French National Agency for Research (ANR SYSCOMM)
This paper deals with the simulation of microbial degradation of organic matter in soil within the pore space at a microscopic scale. Pore space was analysed with micro-computed tomography and described using a sphere network coming from a geometrical modelling algorithm. The biological model was improved regarding previous work in order to include the transformation of dissolved organic compounds and diffusion processes. We tested our model using experimental results of a simple substrate decomposition experiment (fructose) within a simple medium (sand) in the presence of different bacterial strains. Separate incubations were carried out in microcosms using five different bacterial communities at two different water potentials of −10 and −100 cm of water. We calibrated the biological parameters by means of experimental data obtained at high water content, and we tested the model without changing any parameters at low water content. Same as for the experimental data, our simulation results showed that the decrease in water content caused a decrease of mineralization rate. The model was able to simulate the decrease of connectivity between substrate and microorganism due the decrease of water content.
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