Repository for CLM-Microbe and other associated modeling work within the Ecological Modeling and Integration Laboratory at SDSU. http://sci.sdsu.edu/emaillab/. The CLM-Microbe is branched from CLM4.5 in 2013. It is developed under open source license, all codes are publically accessible to anyone who are interested. Please contact Xiaofeng Xu at xxu@sdsu.edu if you want to apply the CLM-Microbe model or have any technical problems.
Publications with the CLM-Microbe model.
Xu, X., J. P. Schimel, P. E. Thornton, X. Song, F. Yuan, and S. Goswami. 2014. Substrate and environmental controls on microbial assimilation of soil organic carbon: a framework for Earth system models. Ecology Letters 17:547-555. (The modeling framework for microbial carbon assimilation)
Xu, X., D. A. Elias, D. E. Graham, T. J. Phelps, S. L. Carrol, S. D. Wullschleger, and P. E. Thornton. 2015. A microbial functional group based module for simulating methane production and consumption: application to an incubation permafrost soil. Journal of Geophysical Research-Biogeosciences 120:1315-1333. (The microbial functional-group based methane module)
Xu, X., F. Yuan, P. J. Hanson, S. D. Wullschleger, P. E. Thornton, W. J. Riley, X. Song, D. E. Graham, C. C. Song, and H. Tian. 2016. Review and Synthesis: Four decades of modeling methane cycling within terrestrial ecosystems. Biogeosciences 13:3735-3755. (A review paper on different types of methane models including the CLM-Microbe)
Wang, Y., F. Yuan, F. Yuan, B. Gu, M. S. Hahn, M. S. Torn, D. M. Ricciuto, J. Kumar, L. He, D. Zona, D. L. Lipson, R. Wagner, W. C. Oechel, S. D. Wullschleger, P. E. Thornton, and X. Xu. 2019. Mechanistic Modeling of microtopographic impact on CH4 processes in an Alaskan tundra ecosystem using the CLM-Microbe model. Journal of Advances in Modeling Earth Systems 11:4228-4304. (Site-level application of the CLM-Microbe in simulating methane flux in the Arctic)
He, L., D.L. Lipson, J.L. Rodrigues, M.A. Mayes, R.G. Bjork, B. Glaser, B., P.E. Thornton, X. Xu (2021). Dynamics of Fungal and Bacterial Biomass Carbon in Natural Ecosystems: Site-level Applications of the CLM-Microbe Model. Journal of Advance in Modeling Earth Systems, DOI: 10.1029/2020MS002283. (Site-level application of the CLM-Microbe in simulating bacterial and fungal biomass in major biomes)
He, L, C.T. Lai, M.A. Mayes, S. Murayama, X. Xu, (2021) Microbial seasonality promotes soil respiratory carbon emission in natural ecosystems: a modeling study. Global Change Biology. DOI:10.1111/gcb.15627. (Site-level model application to confirm microbial seasonality has sitmulation impacts on soil carbon emission)
Wang, Y., Yuan F.M., Anrt K., Liu J.Z., He L.Y., Zuo Y.J., Zona D., Lipson D.A., Oechel W.C., Ricciuto D.M., Wullschleger S.D., Thornton P.E., Xu X.F. (2021) Upscaling methane flux from plot-level to eddy covariance tower domains by combining the CLM-Microbe model with three footprint models. Agricultural and Forestry Meteorology. (Under review) (Regional model application to simulate metane flux in the Arctic)