DC Field | Value | Language |
---|---|---|
dc.contributor.author | Cho, Byung-Kwan | ko |
dc.contributor.author | Kim, Donghyuk | ko |
dc.contributor.author | Knight, Eric M. | ko |
dc.contributor.author | Zengler, Karsten | ko |
dc.contributor.author | Palsson, Bernhard O. | ko |
dc.date.accessioned | 2015-01-29T07:14:55Z | - |
dc.date.available | 2015-01-29T07:14:55Z | - |
dc.date.created | 2014-07-29 | - |
dc.date.created | 2014-07-29 | - |
dc.date.created | 2014-07-29 | - |
dc.date.created | 2014-07-29 | - |
dc.date.created | 2014-07-29 | - |
dc.date.issued | 2014-01 | - |
dc.identifier.citation | BMC BIOLOGY, v.12 | - |
dc.identifier.issn | 1741-7007 | - |
dc.identifier.uri | http://hdl.handle.net/10203/193859 | - |
dc.description.abstract | Background: At the beginning of the transcription process, the RNA polymerase (RNAP) core enzyme requires a sigma-factor to recognize the genomic location at which the process initiates. Although the crucial role of sigma-factors has long been appreciated and characterized for many individual promoters, we do not yet have a genome-scale assessment of their function. Results: Using multiple genome-scale measurements, we elucidated the network of s-factor and promoter interactions in Escherichia coli. The reconstructed network includes 4,724 sigma-factor-specific promoters corresponding to transcription units (TUs), representing an increase of more than 300% over what has been previously reported. The reconstructed network was used to investigate competition between alternative sigma-factors (the sigma(70) and sigma(38) regulons), confirming the competition model of sigma substitution and negative regulation by alternative s-factors. Comparison with sigma-factor binding in Klebsiella pneumoniae showed that transcriptional regulation of conserved genes in closely related species is unexpectedly divergent. Conclusions: The reconstructed network reveals the regulatory complexity of the promoter architecture in prokaryotic genomes, and opens a path to the direct determination of the systems biology of their transcriptional regulatory networks. | - |
dc.language | English | - |
dc.publisher | BIOMED CENTRAL LTD | - |
dc.title | Genome-scale reconstruction of the sigma factor network in Escherichia coli: topology and functional states | - |
dc.type | Article | - |
dc.identifier.wosid | 000333128100001 | - |
dc.identifier.scopusid | 2-s2.0-84892777715 | - |
dc.type.rims | ART | - |
dc.citation.volume | 12 | - |
dc.citation.publicationname | BMC BIOLOGY | - |
dc.identifier.doi | 10.1186/1741-7007-12-4 | - |
dc.embargo.liftdate | 9999-12-31 | - |
dc.embargo.terms | 9999-12-31 | - |
dc.contributor.localauthor | Cho, Byung-Kwan | - |
dc.contributor.nonIdAuthor | Kim, Donghyuk | - |
dc.contributor.nonIdAuthor | Knight, Eric M. | - |
dc.contributor.nonIdAuthor | Zengler, Karsten | - |
dc.contributor.nonIdAuthor | Palsson, Bernhard O. | - |
dc.description.isOpenAccess | N | - |
dc.type.journalArticle | Article | - |
dc.subject.keywordAuthor | Escherichia coli | - |
dc.subject.keywordAuthor | Sigma factor | - |
dc.subject.keywordAuthor | Network reconstruction | - |
dc.subject.keywordAuthor | Comparative analysis | - |
dc.subject.keywordAuthor | Klebsiella pneumoniae | - |
dc.subject.keywordAuthor | Omics data | - |
dc.subject.keywordAuthor | Systems biology | - |
dc.subject.keywordPlus | RNA-POLYMERASE | - |
dc.subject.keywordPlus | PROMOTER SELECTIVITY | - |
dc.subject.keywordPlus | WIDE ANALYSIS | - |
dc.subject.keywordPlus | TRANSCRIPTION | - |
dc.subject.keywordPlus | ARCHITECTURE | - |
dc.subject.keywordPlus | MODULATION | - |
dc.subject.keywordPlus | SUBUNIT | - |
dc.subject.keywordPlus | BINDING | - |
dc.subject.keywordPlus | STRESS | - |
dc.subject.keywordPlus | GENES | - |
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