A Systems Biology Framework for Post-Genomic Microbiology

Co-Principal Investigator:
Michael A. Langston, Department of Computer Science, University of Tennessee
Abstract:
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.
Participants:
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