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Kim, Donghyuk
Systems Biology and Machine Learning Lab.
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dc.citation.endPage 3630 -
dc.citation.number 8 -
dc.citation.startPage 3618 -
dc.citation.title NUCLEIC ACIDS RESEARCH -
dc.citation.volume 51 - Gao, Ye - Bang, Ina - Seif, Yara - Kim, Donghyuk - Palsson, Bernhard O. - 2024-02-15T17:35:13Z - 2024-02-15T17:35:13Z - 2024-02-15 - 2023-05 -
dc.description.abstract While global transcription factors (TFs) have been studied extensively in Escherichia coli model strains, conservation and diversity in TF regulation between strains is still unknown. Here we use a combination of ChIP-exo-to define ferric uptake regulator (Fur) binding sites-and differential gene expression-to define the Fur regulon in nine E. coli strains. We then define a pan-regulon consisting of 469 target genes that includes all Fur target genes in all nine strains. The pan-regulon is then divided into the core regulon (target genes found in all the strains, n = 36), the accessory regulon (target found in two to eight strains, n = 158) and the unique regulon (target genes found in one strain, n = 275). Thus, there is a small set of Fur regulated genes common to all nine strains, but a large number of regulatory targets unique to a particular strain. Many of the unique regulatory targets are genes unique to that strain. This first-established pan-regulon reveals a common core of conserved regulatory targets and significant diversity in transcriptional regulation amongst E. coli strains, reflecting diverse niche specification and strain history. -
dc.identifier.bibliographicCitation NUCLEIC ACIDS RESEARCH, v.51, no.8, pp.3618 - 3630 -
dc.identifier.doi 10.1093/nar/gkad253 -
dc.identifier.issn 0305-1048 -
dc.identifier.scopusid 2-s2.0-85159551257 -
dc.identifier.uri -
dc.identifier.wosid 000963506200001 -
dc.language 영어 -
dc.publisher OXFORD UNIV PRESS -
dc.title The Escherichia coli Fur pan-regulon has few conserved but many unique regulatory targets -
dc.type Article -
dc.description.isOpenAccess TRUE -
dc.relation.journalWebOfScienceCategory Biochemistry & Molecular Biology -
dc.relation.journalResearchArea Biochemistry & Molecular Biology -
dc.type.docType Article -
dc.description.journalRegisteredClass scie -
dc.description.journalRegisteredClass scopus -
dc.subject.keywordPlus GENOME-SCALE -
dc.subject.keywordPlus IRON -
dc.subject.keywordPlus RECONSTRUCTION -
dc.subject.keywordPlus DATABASE -
dc.subject.keywordPlus STRAIN -
dc.subject.keywordPlus GENES -
dc.subject.keywordPlus ROLES -


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