Publication de 12 numéros par an
ISSN Imprimer: 1091-028X
ISSN En ligne: 1934-0508
Indexed in
Pore-Scale Model for Reactive Transport and Biomass Growth
RÉSUMÉ
Two Lagrangian particle models for biomass growth in porous media were proposed. In the first model, a cellular automata approach was used to model interactions of biomass with a fluid. In the second model, pair-wise particle-particle interactions were used to simulate interactions within the biomass and both biomass-fluid and biomass-soil grain interactions. The biomass growth rate in both models was described by double Monod kinetics. For the set of parameters used in the simulations, both models produced qualitatively similar predictions: (1) biomass grows in the shape of bridges connecting soil grains and oriented in the direction of flow so as to minimize resistance to the fluid flow; (2) the solution containing electron donors and acceptors rapidly becomes depleted as it enters the fractured porous domain; and (3) the biomass growth occurs mainly at the entrance into the fracture. Quantitative predictions, such as total mass of microbes and spatial distribution of microbe concentration, were found to be strongly dependent on the type of model. The model that accounted for the detachment and attachment of the microbes predicted a higher ability of biomass to spread along preferential flow paths and seal off the porous matrix than the model with immobile biomass phase.
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Tartakovsky A. M., Lagrangian simulations of unstable gravity-driven flow of fluids with variable density in randomly heterogeneous porous media, Stochastic Environmental Research and Risk Assessment, 24, 7, 2010. Crossref
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Bandara Uditha C., Tartakovsky Alexandre M., Palmer Bruce J., Pore-scale study of capillary trapping mechanism during CO2 injection in geological formations, International Journal of Greenhouse Gas Control, 5, 6, 2011. Crossref
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Tartakovsky A.M., Scheibe T.D., Dimension reduction numerical closure method for advection–diffusion-reaction systems, Advances in Water Resources, 34, 12, 2011. Crossref
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Ryan Emily M., Tartakovsky Alexandre M., Amon Cristina, Pore-scale modeling of competitive adsorption in porous media, Journal of Contaminant Hydrology, 120-121, 2011. Crossref
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Xu Zhijie, Meakin Paul, Tartakovsky Alexandre, Scheibe Timothy D., Dissipative-particle-dynamics model of biofilm growth, Physical Review E, 83, 6, 2011. Crossref
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Ryan Emily M., Tartakovsky Alexandre M., Amon Cristina, A novel method for modeling Neumann and Robin boundary conditions in smoothed particle hydrodynamics, Computer Physics Communications, 181, 12, 2010. Crossref
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Ryan Emily M., Tartakovsky Alexandre M., A hybrid micro-scale model for transport in connected macro-pores in porous media, Journal of Contaminant Hydrology, 126, 1-2, 2011. Crossref
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Yoon Hongkyu, Valocchi Albert J., Werth Charles J., Dewers Thomas, Pore-scale simulation of mixing-induced calcium carbonate precipitation and dissolution in a microfluidic pore network, Water Resources Research, 48, 2, 2012. Crossref
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Tang Youneng, Valocchi Albert J., Werth Charles J., Liu Haihu, An improved pore-scale biofilm model and comparison with a microfluidic flow cell experiment, Water Resources Research, 49, 12, 2013. Crossref
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Yang Xiaofan, Scheibe Timothy D., Richmond Marshall C., Perkins William A., Vogt Sarah J., Codd Sarah L., Seymour Joseph D., McKinley Matthew I., Direct numerical simulation of pore-scale flow in a bead pack: Comparison with magnetic resonance imaging observations, Advances in Water Resources, 54, 2013. Crossref
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Tartakovsky G.D., Tartakovsky A.M., Scheibe T.D., Fang Y., Mahadevan R., Lovley D.R., Pore-scale simulation of microbial growth using a genome-scale metabolic model: Implications for Darcy-scale reactive transport, Advances in Water Resources, 59, 2013. Crossref
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Peszynska Malgorzata, Trykozko Anna, Pore-to-core simulations of flow with large velocities using continuum models and imaging data, Computational Geosciences, 17, 4, 2013. Crossref
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Cui Zhengtao, Welty Claire, Maxwell Reed M., Modeling nitrogen transport and transformation in aquifers using a particle-tracking approach, Computers & Geosciences, 70, 2014. Crossref
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Panchenko Alexander, Tartakovsky Alexandre, Cooper Kevin, Discrete Models of Fluids: Spatial Averaging, Closure, and Model Reduction, SIAM Journal on Applied Mathematics, 74, 2, 2014. Crossref
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Yang Xiaofan, Richmond Marshall C., Scheibe Timothy D., Perkins William A., Resat Haluk, Flow Partitioning in Fully Saturated Soil Aggregates, Transport in Porous Media, 103, 2, 2014. Crossref
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Lèye Babacar, Nguyen-Ngoc Doanh, Monga Olivier, Garnier Patricia, Nunan Naoise, Simulating Biological Dynamics Using Partial Differential Equations: Application to Decomposition of Organic Matter in 3D Soil Structure, Vietnam Journal of Mathematics, 43, 4, 2015. Crossref
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Tang Youneng, Valocchi Albert J., Werth Charles J., A hybrid pore‐scale and continuum‐scale model for solute diffusion, reaction, and biofilm development in porous media, Water Resources Research, 51, 3, 2015. Crossref
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Scheibe Timothy D., Perkins William A., Richmond Marshall C., McKinley Matthew I., Romero-Gomez Pedro D. J., Oostrom Mart, Wietsma Thomas W., Serkowski John A., Zachara John M., Pore-scale and multiscale numerical simulation of flow and transport in a laboratory-scale column, Water Resources Research, 51, 2, 2015. Crossref
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Nguyen-Ngoc Doanh, Leye Babacar, Monga Olivier, Garnier Patricia, Nunan Naoise, Modeling Microbial Decomposition in Real 3D Soil Structures Using Partial Differential Equations, International Journal of Geosciences, 04, 10, 2013. Crossref
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Tartakovsky A. M., Trask N., Pan K., Jones B., Pan W., Williams J. R., Smoothed particle hydrodynamics and its applications for multiphase flow and reactive transport in porous media, Computational Geosciences, 20, 4, 2016. Crossref
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Scheibe Timothy D., Schuchardt Karen, Agarwal Khushbu, Chase Jared, Yang Xiaofan, Palmer Bruce J., Tartakovsky Alexandre M., Elsethagen Todd, Redden George, Hybrid multiscale simulation of a mixing-controlled reaction, Advances in Water Resources, 83, 2015. Crossref
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Li Li, Maher Kate, Navarre-Sitchler Alexis, Druhan Jenny, Meile Christof, Lawrence Corey, Moore Joel, Perdrial Julia, Sullivan Pamela, Thompson Aaron, Jin Lixin, Bolton Edward W., Brantley Susan L., Dietrich William E., Mayer K. Ulrich, Steefel Carl I., Valocchi Albert, Zachara John, Kocar Benjamin, Mcintosh Jennifer, Tutolo Benjamin M., Kumar Mukesh, Sonnenthal Eric, Bao Chen, Beisman Joe, Expanding the role of reactive transport models in critical zone processes, Earth-Science Reviews, 165, 2017. Crossref
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Yan Zhifeng, Liu Chongxuan, Liu Yuanyuan, Bailey Vanessa L., Multiscale Investigation on Biofilm Distribution and Its Impact on Macroscopic Biogeochemical Reaction Rates, Water Resources Research, 53, 11, 2017. Crossref
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Van Looy Kris, Bouma Johan, Herbst Michael, Koestel John, Minasny Budiman, Mishra Umakant, Montzka Carsten, Nemes Attila, Pachepsky Yakov A., Padarian José, Schaap Marcel G., Tóth Brigitta, Verhoef Anne, Vanderborght Jan, Ploeg Martine J., Weihermüller Lutz, Zacharias Steffen, Zhang Yonggen, Vereecken Harry, Pedotransfer Functions in Earth System Science: Challenges and Perspectives, Reviews of Geophysics, 55, 4, 2017. Crossref
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Tang Youneng, Liu Haihu, Modeling multidimensional and multispecies biofilms in porous media, Biotechnology and Bioengineering, 114, 8, 2017. Crossref
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Jung Heewon, Meile Christof, Upscaling of microbially driven first-order reactions in heterogeneous porous media, Journal of Contaminant Hydrology, 224, 2019. Crossref
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Thullner Martin, Regnier Pierre, Microbial Controls on the Biogeochemical Dynamics in the Subsurface, Reviews in Mineralogy and Geochemistry, 85, 1, 2019. Crossref
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Hallett Paul D., Karim Kamal H., Glyn Bengough A., Otten Wilfred, Biophysics of the Vadose Zone: From Reality to Model Systems and Back Again, Vadose Zone Journal, 12, 4, 2013. Crossref
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Vereecken H., Schnepf A., Hopmans J.W., Javaux M., Or D., Roose T., Vanderborght J., Young M.H., Amelung W., Aitkenhead M., Allison S.D., Assouline S., Baveye P., Berli M., Brüggemann N., Finke P., Flury M., Gaiser T., Govers G., Ghezzehei T., Hallett P., Hendricks Franssen H.J., Heppell J., Horn R., Huisman J.A., Jacques D., Jonard F., Kollet S., Lafolie F., Lamorski K., Leitner D., McBratney A., Minasny B., Montzka C., Nowak W., Pachepsky Y., Padarian J., Romano N., Roth K., Rothfuss Y., Rowe E.C., Schwen A., Šimůnek J., Tiktak A., Van Dam J., van der Zee S.E.A.T.M., Vogel H.J., Vrugt J.A., Wöhling T., Young I.M., Modeling Soil Processes: Review, Key Challenges, and New Perspectives, Vadose Zone Journal, 15, 5, 2016. Crossref
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Ahkami Mehrdad, Parmigiani Andrea, Di Palma Paolo Roberto, Saar Martin O., Kong Xiang-Zhao, A lattice-Boltzmann study of permeability-porosity relationships and mineral precipitation patterns in fractured porous media, Computational Geosciences, 24, 5, 2020. Crossref
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Tang Youneng, Werth Charles J., Sanford Robert A., Singh Rajveer, Michelson Kyle, Nobu Masaru, Liu Wen-Tso, Valocchi Albert J., Immobilization of Selenite via Two Parallel Pathways during In Situ Bioremediation, Environmental Science & Technology, 49, 7, 2015. Crossref
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Pot Valérie, Portell Xavier, Otten Wilfred, Garnier Patricia, Monga Olivier, Baveye Philippe C., Accounting for soil architecture and microbial dynamics in microscale models: Current practices in soil science and the path ahead, European Journal of Soil Science, 73, 1, 2022. Crossref
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Pot Valérie, Portell Xavier, Otten Wilfred, Garnier Patricia, Monga Olivier, Baveye Philippe C., Understanding the joint impacts of soil architecture and microbial dynamics on soil functions: Insights derived from microscale models, European Journal of Soil Science, 73, 3, 2022. Crossref