Genomic studies with Escherichia coli MelR protein: Applications of chromatin immunoprecipitation and microarrays

Journal of Bacteriology

Volumn 186, Issue 20, 2004, Pages 6938-6943

  Grainger, David C ^a   Overton, Timothy W ^a   Reppas, Nikos ^c   Wade, Joseph T ^c   Tamai, Eiji ^b   Hobman, Jon L ^a   Constantinidou, Chrystala ^a   Struhl, Kevin ^c   Church, George ^c   Busby, Stephen J W ^a  

^a UNIVERSITY OF BIRMINGHAM   (United Kingdom)

^b KAGAWA UNIVERSITY   (Japan)

^c HARVARD MEDICAL SCHOOL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; MELIBIOSE; PROTEIN MELR; RNA POLYMERASE; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL GENOME; CHROMATIN; CONTROLLED STUDY; DELETION MUTANT; DEVICE; ESCHERICHIA COLI; GENE; GENE EXPRESSION; IMMUNOPRECIPITATION; MELAB GENE; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN ANALYSIS; PROTEIN DNA BINDING; PROTEIN MICROARRAY; PROTEIN PROTEIN INTERACTION; PROTEIN TARGETING; RNA ANALYSIS;

CHROMATIN; DNA-BINDING PROTEINS; DNA-DIRECTED RNA POLYMERASES; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, BACTERIAL; GENOME, BACTERIAL; MELIBIOSE; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PRECIPITIN TESTS; PROMOTER REGIONS (GENETICS); PROTEIN BINDING; SYMPORTERS; TRANS-ACTIVATORS;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; NEGIBACTERIA; PROKARYOTA;

EID: 4944225301     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.186.20.6938-6943.2004     Document Type: Article

References (15)

1. Belyaeva, T., J. Wade, C. Webster, V. Howard, M. Thomas, E. Hyde, and S. Busby. 2000. Transcription activation at the Escherichia coli melAB promoter: the role of MelR and the cyclic AMP receptor protein. Mol. Microbiol. 36:211-222.
2. Blattner, F. R., G. Phinkett 3rd, C. A. Bloch, N. T. Perna, V. Burland, M. Riley, J. Collado-Vides, J. D. Glasner, C. K. Rode, G. F. Mayhew, J. Gregor, N. W. Davis, H. A. Kirkpatrick, M. A. Goeden, D. J. Rose, B. Mao, and Y. Shao. 1997. The complete genome sequence of Escherichia coli K-12. Science 277:1453-1474.
3. Farnham, P. 2002. In vivo assays to examine transcription factor localisation. Methods 26:1-2.
4. Grainger, D., T. Belyaeva, D. Lee, E. Hyde, and S. Busby. 2003. Binding of the Escherichia coli MelR protein to the melAB promoter: orientation of MelR subunits and investigation of MelR-DNA contacts. Mol. Microbiol. 48:335-348.
5. Grainger, D., C. Webster, T. Belyaeva, E. Hyde, and S. Busby. 2004. Transcription activation at the Escherichia coli melAB promoter: interactions of MelR with its DNA target site and with domain 4 of the RNA polymerase σ subunit. Mol. Microbiol. 51:1297-1309.
6. Griffith, K., I. Shah, T. Myers, M. O' Neill, and R, Wolf. 2002. Evidence for "pre-recruitment" as a new mechanism of transcription activation in Escherichia coli: the large excess of SoxS binding sites per cell relative to the number of SoxS molecules per cell. Biochem. Biophys. Res. Commun. 291:979-986.
7. Howard, V., T. Belyaeva, S. Busby, and E. Hyde. 2002. DNA binding of the transcription activator protein MelR from Escherichia coli and its C-terminal domain. Nucleic Acids Res. 30:2692-2700.
8. Kelsall, A., C. Evans, and S. Busby. 1985. A plasmid vector that allows fusion of the E. coli galactokinase gene to the translation startpoint of other genes. FEBS Lett. 180:155-159.
9. Laub, M., S. Chen, L. Shapiro, and H. McAdams. 2002. Genes directly controlled by CtrA, a master regulator of the Caulobacter cell cycle. Proc. Natl. Acad. Sci. USA 99:4632-4637.
10. Martin, R., W. Gillette, N. Martin, and J. Rosner. 2002. Complex formation between activator and RNA polymerase as the basis for transcriptional activation by MarA and SoxS in E. coli. Mol. Microbiol. 43:355-370.
11. Martinez-Antonio, A., and J. Collado Vides. 2000. Identifying global regulators in transcriptional regulatory networks in bacteria. Curr. Opin. Microbiol. 6:1-8.
12. Wade, J., T. Belyaeva, E. Hyde, and S. Busby. 2001. A simple mechanism for co-dependence on two activators at an Escherichia coli promoter: the role of MelR and the cyclic AMP receptor protein. EMBO J. 20:7160-7167.
13. Webster, C., K. Kempsell, I. Booth, and S. Busby. 1987. Organisation of the regulatory region of the Escherichia coli melibiose operon. Gene 59:253-263.
14. Williams, J., C. Michán, C. Webster, and S. Busby. 1994. Interactions between the E. coli MelR transcription activator protein and operator sequences at the melAB promoter. Biochem. J. 300:757-763.
15. Zhang, L., R. R. Chaudhuri, C. Constantinidou, J. L. Hobman, M. D. Patel, A. C. Jones, A. J. Roe, I Vlisidou, R. K. Shaw, M. P. Stevens, et al. Regulators encoded in the ETT2 gene cluster influence expression of genes within the locus for enterocyte effacement in enterohemorrhagic Escherichia coli O157: H7. Infect. Immun., in press.