RRC ID 55836
Author Shimada T, Ogasawara H, Ishihama A.
Title Single-target regulators form a minor group of transcription factors in Escherichia coli K-12.
Journal Nucleic Acids Res
Abstract The identification of regulatory targets of all TFs is critical for understanding the entire network of the genome regulation. The lac regulon of Escherichia coli K-12 W3110 is composed of the lacZYA operon and its repressor lacI gene, and has long been recognized as the seminal model of transcription regulation in bacteria with only one highly preferred target. After the Genomic SELEX screening in vitro of more than 200 transcription factors (TFs) from E. coli K-12, however, we found that most TFs regulate multiple target genes. With respect to the number of regulatory targets, a total of these 200 E. coli TFs form a hierarchy ranging from a single target to as many as 1000 targets. Here we focus a total of 13 single-target TFs, 9 known TFs (BetI, KdpE, LacI, MarR, NanR, RpiR, TorR, UlaR and UxuR) and 4 uncharacterized TFs (YagI, YbaO, YbiH and YeaM), altogether forming only a minor group of TFs in E. coli. These single-target TFs were classified into three groups based on their functional regulation.
Volume 46(8)
Pages 3921-3936
Published 2018-5-4
DOI 10.1093/nar/gky138
PII 4909992
PMID 29529243
PMC PMC5934670
MeSH Escherichia coli K12 / genetics* Escherichia coli K12 / metabolism* Escherichia coli Proteins / classification* Escherichia coli Proteins / genetics Escherichia coli Proteins / metabolism* Gene Expression Regulation, Bacterial Gene Regulatory Networks Genome, Bacterial Lac Operon Lac Repressors / classification Lac Repressors / genetics Lac Repressors / metabolism Models, Biological Regulon SELEX Aptamer Technique Transcription Factors / classification* Transcription Factors / genetics Transcription Factors / metabolism*
IF 11.502
Times Cited 7
Prokaryotes E. coli W3110