B085
Omics-Informed Models of Microbial Dynamics and Processes from Cells to Ecosystems

Session ID#: 80592

Session Description:
The past two decades have seen an explosion of environmental microbiology data resulting from the development and maturation of a number of high throughput -omics technologies (e.g., genomics, proteomics, metabolomics, transcriptomics) and corresponding bioinformatics methods. While the scientific community has widely embraced the use of -omics approaches to elucidate the roles of microbial community processes in ecosystem function, their systematic incorporation into quantitative models of microbial dynamics and processes remains a significant challenge. This challenge is particularly exacerbated by problems associated with variability (heterogeneity) across a range of temporal and spatial scales and associated difficulties in developing well-posed numerical models and parameterizations. We solicit presentations of research addressing this challenge across a range of model scales from microbial metabolism to microbial community dynamics to reactive transport at mesocosm and ecosystem scales.
Index Terms:

0412 Biogeochemical kinetics and reaction modeling [BIOGEOSCIENCES]
0414 Biogeochemical cycles, processes, and modeling [BIOGEOSCIENCES]
0465 Microbiology: ecology, physiology and genomics [BIOGEOSCIENCES]
0466 Modeling [BIOGEOSCIENCES]

Primary Convener:  Timothy D Scheibe, Pacific Northwest National Laboratory, Richland, WA, United States
Conveners:  Romy Chakraborty, Lawrence Berkeley Nat'l Lab, Berkeley, CA, United States, Pamela Weisenhorn, Argonne National Laboratory, Argonne, United States and John D Moulton, Los Alamos National Laboratory, Applied Mathematics and Plasma Physics Group, Los Alamos, NM, United States
Primary Liaison:  Timothy D Scheibe, Pacific Northwest National Laboratory, Richland, WA, United States
 
Multi-omics Integration for Substrate-Explicit Biogeochemical Modeling and More (Invited) (490401)
Hyun-Seob Song1, William C Nelson2, Joon-Yong Lee3, Christopher Henry4, Janaka Edirisinghe5, Filipe Liu5, James Stegen2, Emily Bonnell Graham2, Kewei Chen6, Xuehang Song6, Jianqiu Zheng3, Glenn E Hammond7, John D Moulton8, Xingyuan Chen3 and Timothy D Scheibe3, (1)University of Nebraska Lincoln, Biological Systems Engineering, Lincoln, NE, United States, (2)Pacific Northwest National Laboratory, Biological Sciences, Richland, WA, United States, (3)Pacific Northwest National Laboratory, Richland, WA, United States, (4)Argonne National Laboratory, Argonne, IL, United States, (5)Argonne National Laboratory, Argonne, United States, (6)Pacific Northwest National Laboratory, Richland, United States, (7)Sandia National Laboratories, Applied Systems Analysis & Research, Albuquerque, NM, United States, (8)Los Alamos National Laboratory, Applied Mathematics and Plasma Physics Group, Los Alamos, NM, United States
 
Modeling the size-dependence of microbial functional traits in soil (492580)
Gianna Marschmann, Jinyun Tang and Eoin Brodie, Lawrence Berkeley National Laboratory, Earth and Environmental Sciences, Berkeley, CA, United States
 
Environmental variables predict bacterial communities in the Serengeti (493433)
Bo Stevens, Northern Arizona University, School of Earth and Sustainability, Flagstaff, AZ, United States, Derek Lee Sonderegger, Northern Arizona University, Department of Mathematics and Statistics, Flagstaff, United States and Nancy Collins Johnson, Northern Arizona University, School of Earth and Sustainability, Flagstaff, United States; Northern Arizona University, Department of Biology, Flagstaff, United States
 
Low soil nitrogen accelerates CO2 stimulation of soil respiration in a 12-year experiment (493895)
Qun Gao1, Gangsheng Wang2, Yunfeng Yang1, Kai Xue3, Feifei Liu4, He Zhili5, Ning Daliang5, Sarah E Hobbie6, Peter B. Reich7 and Jizhong Zhou5, (1)Tsinghua University, School of Environment, Beijing, China, (2)University of Oklahoma Norman Campus, Norman, United States, (3)University of Chinese Academy of Sciences, Beijing, China, (4)Guangdong Institute of Microbiology, Guangzhou, China, (5)University of Oklahoma Norman Campus, Norman, OK, United States, (6)University of Minnesota Twin Cities, Dept. of Ecology, Evolution and Behavior, Saint Paul, MN, United States, (7)University of Minnesota Morris, Morris, MN, United States
 
Lower Soil Carbon Loss Due to Persistent Microbial Adaptation to Climate Warming (500432)
Jizhong Zhou1, Xue Guo2, Qun Gao2, Mengting Yuan3, Gangsheng Wang3, Xishu Zhou3, Jiajie Feng3, Linwei Wu3, Liyou Wu1, He Zhili1 and Joy D Van Nostrand1, (1)University of Oklahoma Norman Campus, Norman, OK, United States, (2)Tsinghua University, School of Environment, Beijing, China, (3)University of Oklahoma Norman Campus, Norman, United States
 
The regulation of microbial nitrogen-transforming pathways: an enzyme-explicit modeling approach (591908)
Jianqiu Zheng1, Hyun-Seob Song2 and Timothy D Scheibe1, (1)Pacific Northwest National Laboratory, Richland, WA, United States, (2)PNNL, Richland, WA, United States
 
Hundreds and thousands of microbial genomes. What to do? How to scale? (Invited) (599041)
Eoin Brodie1,2, Ricardo J Alves1, James Bentley Brown3, K. Dana Chadwick4, Brian Joseph Enquist5, Nicola Falco1, Ulas Karaoz1, Katharine Maher4, Sergi Molins1, Gianna Marschmann1, Patrick Sorensen1, Carl I Steefel1, Heidi Steltzer6, Jinyun Tang1, Haruko Murakami Wainwright1 and Shi Wang1, (1)Lawrence Berkeley National Laboratory, Earth and Environmental Sciences, Berkeley, CA, United States, (2)University of California Berkeley, Environmental Science, Policy and Management, Berkeley, CA, United States, (3)Lawrence Berkeley National Laboratory, Environmental Genomics and Systems Biology, Berkeley, CA, United States, (4)Stanford University, Earth System Science, Stanford, CA, United States, (5)University of Arizona, Ecology and Evolutionary Biology, Tucson, AZ, United States, (6)Fort Lewis College, Durango, CO, United States
 
Investigating the Rhizosphere of Brachypodium distachyon Seedlings in Ecosystem Fabrications (EcoFABs) (601872)
Nameera Baig1, Lauren K Jabusch2, Dawn Chiniquy2, Trent Northen1 and Romy Chakraborty3, (1)Lawrence Berkeley National Laboratory, Berkeley, CA, United States, (2)Lawrence Berkeley National Laboratory, Berkeley, United States, (3)Lawrence Berkeley Nat'l Lab, Berkeley, CA, United States
 
Microbial functional diversity mitigates projected soil carbon loss in response to climate change (615984)
Yang Song and Melanie A Mayes, Oak Ridge National Laboratory, Climate Change Science Institute and Environmental Sciences Division, Oak Ridge, TN, United States
 
Machine Learning Framework for the Discovery of Multivariate Associations in Disparate Biological Datasets (621090)
Lee Ann McCue and Lisa Bramer, Pacific Northwest National Laboratory, Richland, WA, United States
 
Multi-scale Modeling of Metabolic and Regulatory Networks of Yarrowia lypolytica (627998)
Neeraj Kumar, Pacific Northwest National Laboratory, Richland, WA, United States and Neeraj kumar, Jeremy Zucker, Erin Bredeweg, William Cannon and Scott Baker
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