Lawrence Livermore National Laboratory

A Systems Biology Approach to Interactions and Resource Allocation in Bioenergy-Relevant Microbial Communities

The LLNL Biofuels Scientific Focus Area (SFA) is focused on the community systems biology of microbial consortia that are closely associated with bioenergy-relevant plants and algae, with the ultimate goal of developing predictive models. Photosynthetic algal and plant systems have the unrivaled advantage of converting solar energy and CO2 into useful organic molecules. Their growth and efficiency are largely shaped and assisted by their surrounding “microbiome”—the groups of microorganisms that dwell in and around plants and algae and live off photosynthate, exopolymers, or exudates. The biogeochemical outcomes of these interactions—how specific taxonomic combinations affect energy and nutrient cycling pathways and are shaped by various environmental stressors—are fundamental concerns in the fields of microbial ecology and bioenergy production.

We seek to understand and predict ecological, biophysical, and biochemical dynamics of multi-taxa communities, as well as the metabolite fluxes that regulate trophic interactions. In our research, we focus on microscale interactions between bacteria and algae in the phycosphere (the surface of algal cells) and between soil bacteria, fungi, and plant roots in the rhizosphere as model systems. Our approach emphasizes microbial ecology, organismal interactions, quantitative isotope tracing of elemental exchanges, and effects of environmental regulation, using techniques that exploit unique LLNL capabilities to measure the microscale impacts of single cells on system scale processes.

News Highlights

April 2, 2020

SFA team members present at DOE BER’s Genomic Sciences Program Annual PI meeting

In February, SFA team members Peter Weber, Rhona Stuart, Patrik D’haeseleer, and Ali Navid presented on data from the LLNL Soil Microbiome SFA during the main session and the follow-on All-SFA half-day meeting.

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Representative nanoSIP images demonstrating high-throughput metabolic screening of cells

New publication shows the power of nanoSIP to characterize microbial metabolism

SFA team members Xavier Mayali, Jessica Wollard, Peter Weber and Jennifer Pett-Ridge joined with researchers from Stanford University and the University of Southern California to use multi-isotope nanoSIMS analysis to study the anabolic activity of marine microorganisms with an emphasis on natural populations of Thaumarchaeota.

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