Genome-wide expression profiling in Geobacter sulfurreducens: identification of Fur and RpoS transcription regulatory sites in a relGsu mutant
| Autor: | Marko Puljic, Julia Krushkal, Ronald M. Adkins, Bin Yan, Laurie N. DiDonato, Kelly P. Nevin, Barbara A. Methe, Trevor L. Woodard, Derek R. Lovley |
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| Rok vydání: | 2006 |
| Předmět: |
Transcription
Genetic Operon Mutant Sigma Factor Biology Regulatory Sequences Nucleic Acid Ligases Bacterial Proteins Transcription (biology) Gene expression Genetics Promoter Regions Genetic Geobacter sulfurreducens Base Sequence Gene Expression Profiling Wild type General Medicine Gene Expression Regulation Bacterial biology.organism_classification Gene expression profiling Repressor Proteins Genes Bacterial Mutation bacteria Geobacter rpoS Gene Deletion Genome Bacterial |
| Zdroj: | Functionalintegrative genomics. 7(3) |
| ISSN: | 1438-793X |
| Popis: | RelGsu is the single Geobacter sulfurreducens homolog of RelA and SpoT proteins found in many organisms. These proteins are involved in the regulation of levels of guanosine 3′, 5′ bispyrophosphate, ppGpp, a molecule that signals slow growth and stress response under nutrient limitation in bacteria. We used information obtained from genome-wide expression profiling of the rel Gsu deletion mutant to identify putative regulatory sites involved in transcription networks modulated by RelGsu or ppGpp. Differential gene expression in the rel Gsu deletion mutant, as compared to the wild type, was available from two growth conditions, steady state chemostat cultures and stationary phase batch cultures. Hierarchical clustering analysis of these two datasets identified several groups of operons that are likely co-regulated. Using a search for conserved motifs in the upstream regions of these co-regulated operons, we identified sequences similar to Fur- and RpoS-regulated sites. These findings suggest that Fur- and RpoS-dependent gene expression in G. sulfurreducens is affected by RelGsu-mediated signaling. |
| Databáze: | OpenAIRE |
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