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Items: 44

1.

The Escherichia coli multiple antibiotic resistance activator protein represses transcription of the lac operon.

Lankester A, Ahmed S, Lamberte LE, Kettles RA, Grainger DC.

Biochem Soc Trans. 2019 Apr 30;47(2):671-677. doi: 10.1042/BST20180498. Epub 2019 Mar 8. Review.

PMID:
30850424
2.

Determination of the 3D Genome Organization of Bacteria Using Hi-C.

Crémazy FG, Rashid FM, Haycocks JR, Lamberte LE, Grainger DC, Dame RT.

Methods Mol Biol. 2018;1837:3-18. doi: 10.1007/978-1-4939-8675-0_1.

PMID:
30109602
3.

cAMP Receptor Protein Controls Vibrio cholerae Gene Expression in Response to Host Colonization.

Manneh-Roussel J, Haycocks JRJ, Magán A, Perez-Soto N, Voelz K, Camilli A, Krachler AM, Grainger DC.

MBio. 2018 Jul 10;9(4). pii: e00966-18. doi: 10.1128/mBio.00966-18.

4.

Waking the neighbours: disruption of H-NS repression by overlapping transcription.

Wade JT, Grainger DC.

Mol Microbiol. 2018 May;108(3):221-225. doi: 10.1111/mmi.13939. Epub 2018 Mar 23.

5.

The multiple antibiotic resistance operon of enteric bacteria controls DNA repair and outer membrane integrity.

Sharma P, Haycocks JRJ, Middlemiss AD, Kettles RA, Sellars LE, Ricci V, Piddock LJV, Grainger DC.

Nat Commun. 2017 Nov 13;8(1):1444. doi: 10.1038/s41467-017-01405-7.

6.

CsrA maximizes expression of the AcrAB multidrug resistance transporter.

Ricci V, Attah V, Overton T, Grainger DC, Piddock LJV.

Nucleic Acids Res. 2017 Dec 15;45(22):12798-12807. doi: 10.1093/nar/gkx929.

7.

Spurious transcription and its impact on cell function.

Wade JT, Grainger DC.

Transcription. 2018;9(3):182-189. doi: 10.1080/21541264.2017.1381794. Epub 2017 Nov 3.

8.

Horizontally acquired AT-rich genes in Escherichia coli cause toxicity by sequestering RNA polymerase.

Lamberte LE, Baniulyte G, Singh SS, Stringer AM, Bonocora RP, Stracy M, Kapanidis AN, Wade JT, Grainger DC.

Nat Microbiol. 2017 Jan 9;2:16249. doi: 10.1038/nmicrobiol.2016.249.

PMID:
28067866
9.

Structure and function of bacterial H-NS protein.

Grainger DC.

Biochem Soc Trans. 2016 Dec 15;44(6):1561-1569. Review.

PMID:
27913665
10.

The unexpected complexity of bacterial genomes.

Grainger DC.

Microbiology. 2016 Jul;162(7):1167-1172. doi: 10.1099/mic.0.000309.

PMID:
27663516
11.

Unusually Situated Binding Sites for Bacterial Transcription Factors Can Have Hidden Functionality.

Haycocks JR, Grainger DC.

PLoS One. 2016 Jun 3;11(6):e0157016. doi: 10.1371/journal.pone.0157016. eCollection 2016. Erratum in: PLoS One. 2016;11(9):e0163074.

12.

DNA recognition by Escherichia coli CbpA protein requires a conserved arginine-minor-groove interaction.

Chintakayala K, Sellars LE, Singh SS, Shahapure R, Westerlaken I, Meyer AS, Dame RT, Grainger DC.

Nucleic Acids Res. 2015 Feb 27;43(4):2282-92. doi: 10.1093/nar/gkv012. Epub 2015 Feb 10.

13.

H-NS and RNA polymerase: a love-hate relationship?

Landick R, Wade JT, Grainger DC.

Curr Opin Microbiol. 2015 Apr;24:53-9. doi: 10.1016/j.mib.2015.01.009. Epub 2015 Jan 30. Review.

PMID:
25638302
14.

The molecular basis for control of ETEC enterotoxin expression in response to environment and host.

Haycocks JR, Sharma P, Stringer AM, Wade JT, Grainger DC.

PLoS Pathog. 2015 Jan 8;11(1):e1004605. doi: 10.1371/journal.ppat.1004605. eCollection 2015 Jan.

15.

Pervasive transcription: illuminating the dark matter of bacterial transcriptomes.

Wade JT, Grainger DC.

Nat Rev Microbiol. 2014 Sep;12(9):647-53. doi: 10.1038/nrmicro3316. Epub 2014 Jul 28. Review.

PMID:
25069631
16.

Widespread suppression of intragenic transcription initiation by H-NS.

Singh SS, Singh N, Bonocora RP, Fitzgerald DM, Wade JT, Grainger DC.

Genes Dev. 2014 Feb 1;28(3):214-9. doi: 10.1101/gad.234336.113. Epub 2014 Jan 21. Erratum in: Genes Dev. 2014 Aug 1;28(15):1733.

17.

H-NS can facilitate specific DNA-binding by RNA polymerase in AT-rich gene regulatory regions.

Singh SS, Grainger DC.

PLoS Genet. 2013 Jun;9(6):e1003589. doi: 10.1371/journal.pgen.1003589. Epub 2013 Jun 20.

18.

The Escherichia coli Nucleoid in Stationary Phase.

Meyer AS, Grainger DC.

Adv Appl Microbiol. 2013;83:69-86. doi: 10.1016/B978-0-12-407678-5.00002-7.

PMID:
23651594
19.

E. coli Fis protein insulates the cbpA gene from uncontrolled transcription.

Chintakayala K, Singh SS, Rossiter AE, Shahapure R, Dame RT, Grainger DC.

PLoS Genet. 2013;9(1):e1003152. doi: 10.1371/journal.pgen.1003152. Epub 2013 Jan 17.

20.

Multidisciplinary perspectives on bacterial genome organization and dynamics.

Dame RT, Espéli O, Grainger DC, Wiggins PA.

Mol Microbiol. 2012 Dec;86(5):1023-30. doi: 10.1111/mmi.12055. Epub 2012 Oct 15.

21.

Chromosomal macrodomains and associated proteins: implications for DNA organization and replication in gram negative bacteria.

Dame RT, Kalmykowa OJ, Grainger DC.

PLoS Genet. 2011 Jun;7(6):e1002123. doi: 10.1371/journal.pgen.1002123. Epub 2011 Jun 16. Review.

22.

A conserved acidic amino acid mediates the interaction between modulators and co-chaperones in enterobacteria.

Chintakayala K, Grainger DC.

J Mol Biol. 2011 Aug 12;411(2):313-20. doi: 10.1016/j.jmb.2011.05.043. Epub 2011 Jun 12.

PMID:
21683710
23.

Escherichia coli σ⁷⁰ senses sequence and conformation of the promoter spacer region.

Singh SS, Typas A, Hengge R, Grainger DC.

Nucleic Acids Res. 2011 Jul;39(12):5109-18. doi: 10.1093/nar/gkr080. Epub 2011 Mar 11.

24.

The Escherichia coli K-12 MntR miniregulon includes dps, which encodes the major stationary-phase DNA-binding protein.

Yamamoto K, Ishihama A, Busby SJ, Grainger DC.

J Bacteriol. 2011 Mar;193(6):1477-80. doi: 10.1128/JB.01230-10. Epub 2011 Jan 14.

25.

Effects of nucleoid-associated proteins on bacterial chromosome structure and gene expression.

Browning DF, Grainger DC, Busby SJ.

Curr Opin Microbiol. 2010 Dec;13(6):773-80. doi: 10.1016/j.mib.2010.09.013. Epub 2010 Oct 13. Review.

PMID:
20951079
26.

Dynamic distribution of seqa protein across the chromosome of escherichia coli K-12.

Sánchez-Romero MA, Busby SJ, Dyer NP, Ott S, Millard AD, Grainger DC.

MBio. 2010 May 18;1(1). pii: e00012-10. doi: 10.1128/mBio.00012-10.

27.

Dimerization and DNA-dependent aggregation of the Escherichia coli nucleoid protein and chaperone CbpA.

Cosgriff S, Chintakayala K, Chim YT, Chen X, Allen S, Lovering AL, Grainger DC.

Mol Microbiol. 2010 Sep;77(5):1289-300. doi: 10.1111/j.1365-2958.2010.07292.x.

28.

Direct methods for studying transcription regulatory proteins and RNA polymerase in bacteria.

Grainger DC, Lee DJ, Busby SJ.

Curr Opin Microbiol. 2009 Oct;12(5):531-5. doi: 10.1016/j.mib.2009.08.006. Epub 2009 Sep 15. Review.

PMID:
19762273
29.

Dissecting regulatory networks in host-pathogen interaction using chIP-on-chip technology.

Sala C, Grainger DC, Cole ST.

Cell Host Microbe. 2009 May 8;5(5):430-7. doi: 10.1016/j.chom.2009.04.007. Review.

30.

Global regulators of transcription in Escherichia coli: mechanisms of action and methods for study.

Grainger DC, Busby SJ.

Adv Appl Microbiol. 2008;65:93-113. doi: 10.1016/S0065-2164(08)00604-7. Review. No abstract available.

PMID:
19026863
31.

Methods for studying global patterns of DNA binding by bacterial transcription factors and RNA polymerase.

Grainger DC, Busby SJ.

Biochem Soc Trans. 2008 Aug;36(Pt 4):754-7. doi: 10.1042/BST0360754. Review.

PMID:
18631153
32.

The Escherichia coli RutR transcription factor binds at targets within genes as well as intergenic regions.

Shimada T, Ishihama A, Busby SJ, Grainger DC.

Nucleic Acids Res. 2008 Jul;36(12):3950-5. doi: 10.1093/nar/gkn339. Epub 2008 May 30.

33.

Selective repression by Fis and H-NS at the Escherichia coli dps promoter.

Grainger DC, Goldberg MD, Lee DJ, Busby SJ.

Mol Microbiol. 2008 Jun;68(6):1366-77. doi: 10.1111/j.1365-2958.2008.06253.x. Epub 2008 Apr 28.

34.

Autoregulation of the Escherichia coli melR promoter: repression involves four molecules of MelR.

Samarasinghe S, El-Robh MS, Grainger DC, Zhang W, Soultanas P, Busby SJ.

Nucleic Acids Res. 2008 May;36(8):2667-76. doi: 10.1093/nar/gkn119. Epub 2008 Mar 16.

35.

Genomic analysis of protein-DNA interactions in bacteria: insights into transcription and chromosome organization.

Wade JT, Struhl K, Busby SJ, Grainger DC.

Mol Microbiol. 2007 Jul;65(1):21-6. Review.

36.

Transcription factor distribution in Escherichia coli: studies with FNR protein.

Grainger DC, Aiba H, Hurd D, Browning DF, Busby SJ.

Nucleic Acids Res. 2007;35(1):269-78. Epub 2006 Dec 12.

37.

Association of nucleoid proteins with coding and non-coding segments of the Escherichia coli genome.

Grainger DC, Hurd D, Goldberg MD, Busby SJ.

Nucleic Acids Res. 2006;34(16):4642-52. Epub 2006 Sep 8.

38.

Extensive functional overlap between sigma factors in Escherichia coli.

Wade JT, Castro Roa D, Grainger DC, Hurd D, Busby SJ, Struhl K, Nudler E.

Nat Struct Mol Biol. 2006 Sep;13(9):806-14. Epub 2006 Aug 6.

PMID:
16892065
39.

Studies of the distribution of Escherichia coli cAMP-receptor protein and RNA polymerase along the E. coli chromosome.

Grainger DC, Hurd D, Harrison M, Holdstock J, Busby SJ.

Proc Natl Acad Sci U S A. 2005 Dec 6;102(49):17693-8. Epub 2005 Nov 21.

40.

Integration of three signals at the Escherichia coli nrf promoter: a role for Fis protein in catabolite repression.

Browning DF, Grainger DC, Beatty CM, Wolfe AJ, Cole JA, Busby SJ.

Mol Microbiol. 2005 Jul;57(2):496-510.

41.

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

Grainger DC, Overton TW, Reppas N, Wade JT, Tamai E, Hobman JL, Constantinidou C, Struhl K, Church G, Busby SJ.

J Bacteriol. 2004 Oct;186(20):6938-43.

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