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Article: Genome-wide expression profiling in Geobacter sulfurreducens: Identification of Fur and RpoS transcription regulatory sites in a relGSU mutant

TitleGenome-wide expression profiling in Geobacter sulfurreducens: Identification of Fur and RpoS transcription regulatory sites in a relGSU mutant
Authors
KeywordsGuanosine 3′,5′ bispyrophosphate
ppGpp
Promoter
RelA
Issue Date2007
PublisherSpringer Verlag.
Citation
Functional and Integrative Genomics, 2007, v. 7 n. 3, p. 229-255 How to Cite?
AbstractRelGsu 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 Identifierhttp://hdl.handle.net/10722/233704
ISSN
2015 Impact Factor: 2.265
2015 SCImago Journal Rankings: 1.062

 

DC FieldValueLanguage
dc.contributor.authorKrushkal, J-
dc.contributor.authorYan, B-
dc.contributor.authorDiDonato, LN-
dc.contributor.authorPuljic, M-
dc.contributor.authorNevin, KP-
dc.contributor.authorWoodard, TL-
dc.contributor.authorAdkins, RM-
dc.contributor.authorMethé, BA-
dc.contributor.authorLovley, DR-
dc.date.accessioned2016-09-20T06:02:56Z-
dc.date.available2016-09-20T06:02:56Z-
dc.date.issued2007-
dc.identifier.citationFunctional and Integrative Genomics, 2007, v. 7 n. 3, p. 229-255-
dc.identifier.issn1438-793X-
dc.identifier.urihttp://hdl.handle.net/10722/233704-
dc.description.abstractRelGsu 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.languageeng-
dc.publisherSpringer Verlag.-
dc.relation.ispartofFunctional and Integrative Genomics-
dc.rightsThe final publication is available at Springer via http://dx.doi.org/[insert DOI]-
dc.subjectGuanosine 3′,5′ bispyrophosphate-
dc.subjectppGpp-
dc.subjectPromoter-
dc.subjectRelA-
dc.titleGenome-wide expression profiling in Geobacter sulfurreducens: Identification of Fur and RpoS transcription regulatory sites in a relGSU mutant-
dc.typeArticle-
dc.identifier.emailYan, B: yanbin14@hku.hk-
dc.identifier.authorityYan, B=rp01940-
dc.description.naturelink_to_subscribed_fulltext-
dc.identifier.doi10.1007/s10142-007-0048-5-
dc.identifier.pmid17406915-
dc.identifier.scopuseid_2-s2.0-34249688200-
dc.identifier.volume7-
dc.identifier.issue3-
dc.identifier.spage229-
dc.identifier.epage255-

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