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- Publisher Website: 10.1007/s10142-007-0048-5
- Scopus: eid_2-s2.0-34249688200
- PMID: 17406915
- WOS: WOS:000247188700005
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Article: Genome-wide expression profiling in Geobacter sulfurreducens: Identification of Fur and RpoS transcription regulatory sites in a relGSU mutant
Title | Genome-wide expression profiling in Geobacter sulfurreducens: Identification of Fur and RpoS transcription regulatory sites in a relGSU mutant |
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Authors | |
Keywords | Guanosine 3′,5′ bispyrophosphate ppGpp Promoter RelA |
Issue Date | 2007 |
Publisher | Springer Verlag. |
Citation | Functional and Integrative Genomics, 2007, v. 7 n. 3, p. 229-255 How to Cite? |
Abstract | 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 relGsu deletion mutant to identify putative regulatory sites involved in transcription networks modulated by RelGsu or ppGpp. Differential gene expression in the relGsu 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. |
Persistent Identifier | http://hdl.handle.net/10722/233704 |
ISSN | 2023 Impact Factor: 3.9 2023 SCImago Journal Rankings: 0.584 |
ISI Accession Number ID |
DC Field | Value | Language |
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dc.contributor.author | Krushkal, J | - |
dc.contributor.author | Yan, B | - |
dc.contributor.author | DiDonato, LN | - |
dc.contributor.author | Puljic, M | - |
dc.contributor.author | Nevin, KP | - |
dc.contributor.author | Woodard, TL | - |
dc.contributor.author | Adkins, RM | - |
dc.contributor.author | Methé, BA | - |
dc.contributor.author | Lovley, DR | - |
dc.date.accessioned | 2016-09-20T06:02:56Z | - |
dc.date.available | 2016-09-20T06:02:56Z | - |
dc.date.issued | 2007 | - |
dc.identifier.citation | Functional and Integrative Genomics, 2007, v. 7 n. 3, p. 229-255 | - |
dc.identifier.issn | 1438-793X | - |
dc.identifier.uri | http://hdl.handle.net/10722/233704 | - |
dc.description.abstract | 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 relGsu deletion mutant to identify putative regulatory sites involved in transcription networks modulated by RelGsu or ppGpp. Differential gene expression in the relGsu 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. | - |
dc.language | eng | - |
dc.publisher | Springer Verlag. | - |
dc.relation.ispartof | Functional and Integrative Genomics | - |
dc.rights | The final publication is available at Springer via http://dx.doi.org/[insert DOI] | - |
dc.subject | Guanosine 3′,5′ bispyrophosphate | - |
dc.subject | ppGpp | - |
dc.subject | Promoter | - |
dc.subject | RelA | - |
dc.title | Genome-wide expression profiling in Geobacter sulfurreducens: Identification of Fur and RpoS transcription regulatory sites in a relGSU mutant | - |
dc.type | Article | - |
dc.identifier.email | Yan, B: yanbin14@hku.hk | - |
dc.identifier.authority | Yan, B=rp01940 | - |
dc.description.nature | link_to_subscribed_fulltext | - |
dc.identifier.doi | 10.1007/s10142-007-0048-5 | - |
dc.identifier.pmid | 17406915 | - |
dc.identifier.scopus | eid_2-s2.0-34249688200 | - |
dc.identifier.volume | 7 | - |
dc.identifier.issue | 3 | - |
dc.identifier.spage | 229 | - |
dc.identifier.epage | 255 | - |
dc.identifier.isi | WOS:000247188700005 | - |
dc.identifier.issnl | 1438-793X | - |