Transcription factor distribution in Escherichia coli: studies with FNR protein.
Using chromatin immunoprecipitation (ChIP) and high-density microarrays, we have measured the distribution of the global transcription regulator protein, FNR, across the entire Escherichia coli chromosome in exponentially growing cells. Sixty-three binding targets, each located at the 5' end of a gene, were identified. Some targets are adjacent to poorly transcribed genes where FNR has little impact on transcription. In stationary phase, the distribution of FNR was largely unchanged. Control experiments showed that, like FNR, the distribution of the nucleoid-associated protein, IHF, is little altered when cells enter stationary phase, whilst RNA polymerase undergoes a complete redistribution.
Grainger
David C
DC
School of Biosciences, University of Birmingham, Edgbaston, Birmingham B15 2TT, UK. d.grainger@bham.ac.uk
Aiba
Hirofumi
H
Hurd
Douglas
D
Browning
Douglas F
DF
Busby
Stephen J W
SJ
D001665:Binding Sites; D047369:Chromatin Immunoprecipitation; D002876:Chromosomes, Bacterial; D004269:DNA, Bacterial / Q000737:chemistry / Q000302:isolation & purification / Q000378:metabolism; D004926:Escherichia coli / Q000235:genetics* / Q000254:growth & development; D029968:Escherichia coli Proteins / Q000032:analysis* / Q000378:metabolism; D007506:Iron-Sulfur Proteins / Q000032:analysis* / Q000378:metabolism; D020411:Oligonucleotide Array Sequence Analysis; D050436:Regulatory Elements, Transcriptional; D017422:Sequence Analysis, DNA; D014157:Transcription Factors / Q000032:analysis* / Q000378:metabolism
D004269:DNA, Bacterial; D029968:Escherichia coli Proteins; C060704:FNR protein, E coli; D007506:Iron-Sulfur Proteins; D014157:Transcription Factors