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PMID:16963779

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Contents

Citation

Grainger, DC, Hurd, D, Goldberg, MD and Busby, SJ (2006) Association of nucleoid proteins with coding and non-coding segments of the Escherichia coli genome. Nucleic Acids Res. 34:4642-52

Abstract

The Escherichia coli chromosome is condensed into an ill-defined structure known as the nucleoid. Nucleoid-associated DNA-binding proteins are involved in maintaining this structure and in mediating chromosome compaction. We have exploited chromatin immunoprecipitation and high-density microarrays to study the binding of three such proteins, FIS, H-NS and IHF, across the E.coli genome in vivo. Our results show that the distribution of these proteins is biased to intergenic parts of the genome, and that the binding profiles overlap. Hence some targets are associated with combinations of bound FIS, H-NS and IHF. In addition, many regions associated with FIS and H-NS are also associated with RNA polymerase.

Links

PubMed PMC1636352 Online version:10.1093/nar/gkl542

Keywords

Bacterial Proteins/metabolism; Binding Sites; Chromatin Immunoprecipitation; Chromosomes, Bacterial; DNA, Bacterial/metabolism; DNA, Intergenic/metabolism; DNA-Binding Proteins/isolation & purification; DNA-Binding Proteins/metabolism; DNA-Directed RNA Polymerases/metabolism; Escherichia coli/genetics; Escherichia coli Proteins/isolation & purification; Escherichia coli Proteins/metabolism; Factor For Inversion Stimulation Protein; Genome, Bacterial; Integration Host Factors/metabolism; Oligonucleotide Array Sequence Analysis; Transcription Factors/metabolism; Transcription, Genetic

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Useful Materials and Methods

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Annotations

Gene product Qualifier GO ID GO term name Evidence Code with/from Aspect Notes Status

Data

Strain/Organism Assay Analyte Variable Conditions Notes Links

MG1655

ChIP-chip

FIS

MG1655

ChIP-chip

H-NS

MG1655

ChIP-chip

IHF

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See also

References

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