Nucleic Acids Research Advance Access originally published online on September 8, 2006
Nucleic Acids Research 2006 34(16):4642-4652; doi:10.1093/nar/gkl542
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Nucleic Acids Research, 2006, Vol. 34, No. 16 4642-4652
© 2006 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
Molecular Biology |
Association of nucleoid proteins with coding and non-coding segments of the Escherichia coli genome
School of Biosciences, University of Birmingham Edgbaston, Birmingham B15 2TT, UK 1 Oxford Gene Technology, Begbroke Science Park Sandy Lane, Yarnton, Oxford OX5 1PF, UK
*To whom correspondence should be addressed. Tel: +44 121 414 5435; Fax: +44 121 414 5925; Email: d.grainger{at}bham.ac.uk
Received June 26, 2006. Revised July 11, 2006. Accepted July 12, 2006.
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.
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