Articles | Volume 9, issue 3
https://doi.org/10.5194/gmd-9-927-2016
https://doi.org/10.5194/gmd-9-927-2016
Development and technical paper
 | 
04 Mar 2016
Development and technical paper |  | 04 Mar 2016

Addressing numerical challenges in introducing a reactive transport code into a land surface model: a biogeochemical modeling proof-of-concept with CLM–PFLOTRAN 1.0

Guoping Tang, Fengming Yuan, Gautam Bisht, Glenn E. Hammond, Peter C. Lichtner, Jitendra Kumar, Richard T. Mills, Xiaofeng Xu, Ben Andre, Forrest M. Hoffman, Scott L. Painter, and Peter E. Thornton

Related authors

Biogeochemical modeling of CO2 and CH4 production in anoxic Arctic soil microcosms
Guoping Tang, Jianqiu Zheng, Xiaofeng Xu, Ziming Yang, David E. Graham, Baohua Gu, Scott L. Painter, and Peter E. Thornton
Biogeosciences, 13, 5021–5041, https://doi.org/10.5194/bg-13-5021-2016,https://doi.org/10.5194/bg-13-5021-2016, 2016
Short summary

Related subject area

Climate and Earth system modeling
Advanced climate model evaluation with ESMValTool v2.11.0 using parallel, out-of-core, and distributed computing
Manuel Schlund, Bouwe Andela, Jörg Benke, Ruth Comer, Birgit Hassler, Emma Hogan, Peter Kalverla, Axel Lauer, Bill Little, Saskia Loosveldt Tomas, Francesco Nattino, Patrick Peglar, Valeriu Predoi, Stef Smeets, Stephen Worsley, Martin Yeo, and Klaus Zimmermann
Geosci. Model Dev., 18, 4009–4021, https://doi.org/10.5194/gmd-18-4009-2025,https://doi.org/10.5194/gmd-18-4009-2025, 2025
Short summary
ICON-HAM-lite 1.0: simulating the Earth system with interactive aerosols at kilometer scales
Philipp Weiss, Ross Herbert, and Philip Stier
Geosci. Model Dev., 18, 3877–3894, https://doi.org/10.5194/gmd-18-3877-2025,https://doi.org/10.5194/gmd-18-3877-2025, 2025
Short summary
Process-based modeling framework for sustainable irrigation management at the regional scale: integrating rice production, water use, and greenhouse gas emissions
Yan Bo, Hao Liang, Tao Li, and Feng Zhou
Geosci. Model Dev., 18, 3799–3817, https://doi.org/10.5194/gmd-18-3799-2025,https://doi.org/10.5194/gmd-18-3799-2025, 2025
Short summary
Implementing deep soil and dynamic root uptake in Noah-MP (v4.5): impact on Amazon dry-season transpiration
Carolina A. Bieri, Francina Dominguez, Gonzalo Miguez-Macho, and Ying Fan
Geosci. Model Dev., 18, 3755–3779, https://doi.org/10.5194/gmd-18-3755-2025,https://doi.org/10.5194/gmd-18-3755-2025, 2025
Short summary
Reducing time and computing costs in EC-Earth: an automatic load-balancing approach for coupled Earth system models
Sergi Palomas, Mario C. Acosta, Gladys Utrera, and Etienne Tourigny
Geosci. Model Dev., 18, 3661–3679, https://doi.org/10.5194/gmd-18-3661-2025,https://doi.org/10.5194/gmd-18-3661-2025, 2025
Short summary

Cited articles

Bethke, C. M.: Geochemical and Biogeochemical Reaction Modeling, Cambridge University Press, 2007.
Bonan, G. B., Hartman, M. D., Parton, W. J., and Wieder, W. R.: Evaluating litter decomposition in earth system models with long-term litterbag experiments: an example using the Community Land Model version 4 (CLM4), Glob. Change Biol., 19, 957–974, https://doi.org/10.1111/gcb.12031, 2012.
Boyer, E. W., Alexander, R. B., Parton, W. J., Li, C., Butterbach-Bahl, K., Donner, S. D., Skaggs, R. W., and Grosso, S. J. D.: Modeling denitrification in terrestrial and aquatic ecosystems at regional scales, Ecol. Appl., 16, 2123–2142, https://doi.org/10.1890/1051-0761(2006)016[2123:MDITAA]2.0.CO;2, 2006.
Conrad, R.: Soil microorganisms as controllers of atmospheric trace gases (H2, CO, CH4, OCS, N2O, and NO), Microbi. Rev., 60, 609–640, available at: http://mmbr.asm.org/content/60/4/609.full.pdf (last access: 14 December 2015), 8987358[pmid], 1996.
da Costa, A. C. L., Galbraith, D., Almeida, S., Portela, B. T. T., da Costa, M., de Athaydes Silva Junior, J., Braga, A. P., de Gonçalves, P. H. L., de Oliveira, A. A. R., Fisher, R., Phillips, O. L., Metcalfe, D. B., Levy, P., and Meir, P.: Effect of 7 yr of experimental drought on vegetation dynamics and biomass storage of an eastern Amazonian rainforest, New Phytol., 187, 579–591, https://doi.org/10.1111/j.1469-8137.2010.03309.x, 2010.
Download
Short summary
We demonstrate that CLM-PFLOTRAN predictions are consistent with CLM4.5 for Arctic, temperate, and tropical sites. A tight relative tolerance may be needed to avoid false convergence when scaling, clipping, or log transformation is used to avoid negative concentration in implicit time stepping and Newton-Raphson methods. The log transformation method is accurate and robust while relaxing relative tolerance or using the clipping or scaling method can result in efficient solutions.
Share