WS30:
Modeling Microbial Dynamic and Processes from Cells to Ecosystems


Submit an Abstract to this Session


Session ID#: 54511

Session Description:
Incorporation of microbial processes in mechanistic models at various levels of complexity has been approached using a variety of methods including genome-informed, trait-based methods, enzyme-based reaction networks, and flux balance analysis. In this workshop, we will present tutorials on three sets of tools: (1) KBase - a system for integrating, analyzing, and modeling genomic data in a Jupyter-notebook-like interface; (2) PFLOTRAN – a subsurface flow and biogeochemical reactive transport simulation package; (3) tools developed by EMSL and PNNL for FT-ICR data integration, visualization, and modeling. Together, these systems offer great potential to support the integration of mechanistic models of biological systems into ecosystem biogeochemical simulations, while using environmental metabolomics data to fit and validate these models. The workshop will start with research presentations from leading pioneers in this field, followed by tutorials and hands-on demonstrations. Bring laptops!
Submitters:  Maggie Mae Bowman, Pacific Northwest National Laboratory, Environmental Molecular Sciences Laboratory, Richland, WA, United States, Timothy D Scheibe, Pacific Northwest National Laboratory, Richland, WA, United States and Christopher D. Henry, University of Nevada Reno, Nevada Bureau of Mines and Geology, Reno, NV, United States
Presenters:  Lee Ann McCue, Pacific Northwest National Lab, Richland, United States, Hyun-Seob Song, University of Nebraska Lincoln, Department of Biological Systems Engineering, Department of Food Science and Technology, Nebraska Food for Health Center, Lincoln, United States, Romy Chakraborty, Lawrence Berkeley National Laboratory, Berkeley, United States, Pamela Weisenhorn, Argonne National Laboratory, Argonne, IL, United States, Xuehang Song, Pacific Northwest National Laboratory, Richland, WA, United States, John D Moulton, Los Alamos National Laboratory, Theoretical Division, Los Alamos, NM, United States and Roelof Versteeg, Subsurface Insights, Hanover, NH, United States
Onsite Contact:  Maggie Mae Bowman, Pacific Northwest National Laboratory, Environmental Molecular Sciences Laboratory, Richland, WA, United States

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