A Systems Biology Framework for Post-Genomic Microbiology

Co-Principal Investigator:
Michael A. Langston, Department of Computer Science, University of Tennessee
The ORNL GTL Center for Molecular and Cellular Systems has developed a powerful experimental capacity in bacterial proteomics: whole proteome analysis for a variety of growth conditions, pull-down identification of protein complexes, and knockouts of selected genes. A major focus of this project is to place these capabilities into a systems biology context, that is, to be able to ask and answer questions at a more holistic level for the target bacterial organisms. On the experimental side, the increasing volume of high-throughput data requires a systematic picture of all available information to be transformed into biological knowledge. On the computational side, the development of novel algorithms requires direct and interactive access to genome-wide experiments. A systems biology framework for post-genomic microbiology is to be developed using Rhodopseudomonas palustris as a model. Specific goals include the creation of a comprehensive annotated map of protein-protein interactions in R. palustris, the development of a feedback loop between this map and ongoing pull-down and whole proteome experiments, the integration of results from mining expression arrays, and the incorporation of regulatory and metabolic information.
The PI for this project is Frank Larimer.
Other Sites of Interest:
DOE Joint Genome Institute
DOE JGI Rhodopseudomonas palustris Homepage
Rhodopseudomonas palustris Complete Genome Sequence and Annotation