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Position effects on promoter activity in Escherichia coli and their consequences for antibiotic-resistance determinants.

Cooke K, Browning DF, Lee DJ, Blair JMA, McNeill HE, Huber D, Busby SJW, Bryant JA.

Biochem Soc Trans. 2019 Jun 12. pii: BST20180503. doi: 10.1042/BST20180503. [Epub ahead of print] Review.


Bacterial Transcription Factors: Regulation by Pick "N" Mix.

Browning DF, Butala M, Busby SJW.

J Mol Biol. 2019 Apr 16. pii: S0022-2836(19)30205-0. doi: 10.1016/j.jmb.2019.04.011. [Epub ahead of print] Review.


Exploitation of the Escherichia coli lac operon promoter for controlled recombinant protein production.

Browning DF, Godfrey RE, Richards KL, Robinson C, Busby SJW.

Biochem Soc Trans. 2019 Apr 30;47(2):755-763. doi: 10.1042/BST20190059. Epub 2019 Apr 10. Review.


DNA barcodes for rapid, whole genome, single-molecule analyses.

Wand NO, Smith DA, Wilkinson AA, Rushton AE, Busby SJW, Styles IB, Neely RK.

Nucleic Acids Res. 2019 Mar 28. pii: gkz212. doi: 10.1093/nar/gkz212. [Epub ahead of print]


Transcription activation in bacteria: ancient and modern.

Busby SJW.

Microbiology. 2019 Apr;165(4):386-395. doi: 10.1099/mic.0.000783. Epub 2019 Feb 18.


Oxygen and contact with human intestinal epithelium independently stimulate virulence gene expression in enteroaggregative Escherichia coli.

Ellis SJ, Yasir M, Browning DF, Busby SJW, Schüller S.

Cell Microbiol. 2019 Jun;21(6):e13012. doi: 10.1111/cmi.13012. Epub 2019 Feb 15.


Organization and architecture of AggR-dependent promoters from enteroaggregative Escherichia coli.

Yasir M, Icke C, Abdelwahab R, Haycocks JR, Godfrey RE, Sazinas P, Pallen MJ, Henderson IR, Busby SJW, Browning DF.

Mol Microbiol. 2019 Feb;111(2):534-551. doi: 10.1111/mmi.14172. Epub 2018 Dec 18.


A unified resource for transcriptional regulation in Escherichia coli K-12 incorporating high-throughput-generated binding data into RegulonDB version 10.0.

Santos-Zavaleta A, Sánchez-Pérez M, Salgado H, Velázquez-Ramírez DA, Gama-Castro S, Tierrafría VH, Busby SJW, Aquino P, Fang X, Palsson BO, Galagan JE, Collado-Vides J.

BMC Biol. 2018 Aug 16;16(1):91. doi: 10.1186/s12915-018-0555-y.


Escherichia coli "TatExpress" strains super-secrete human growth hormone into the bacterial periplasm by the Tat pathway.

Browning DF, Richards KL, Peswani AR, Roobol J, Busby SJW, Robinson C.

Biotechnol Bioeng. 2017 Dec;114(12):2828-2836. doi: 10.1002/bit.26434. Epub 2017 Oct 6.


Development of a new fluorescent reporter:operator system: location of AraC regulated genes in Escherichia coli K-12.

Sellars LE, Bryant JA, Sánchez-Romero MA, Sánchez-Morán E, Busby SJW, Lee DJ.

BMC Microbiol. 2017 Aug 3;17(1):170. doi: 10.1186/s12866-017-1079-2.


Tracking Low-Copy Transcription Factors in Living Bacteria: The Case of the lac Repressor.

Garza de Leon F, Sellars L, Stracy M, Busby SJW, Kapanidis AN.

Biophys J. 2017 Apr 11;112(7):1316-1327. doi: 10.1016/j.bpj.2017.02.028.


Regulation of nrf operon expression in pathogenic enteric bacteria: sequence divergence reveals new regulatory complexity.

Godfrey RE, Lee DJ, Busby SJW, Browning DF.

Mol Microbiol. 2017 May;104(4):580-594. doi: 10.1111/mmi.13647. Epub 2017 Mar 1.


Regulation, sensory domains and roles of two Desulfovibrio desulfuricans ATCC27774 Crp family transcription factors, HcpR1 and HcpR2, in response to nitrosative stress.

Cadby IT, Ibrahim SA, Faulkner M, Lee DJ, Browning D, Busby SJ, Lovering AL, Stapleton MR, Green J, Cole JA.

Mol Microbiol. 2016 Dec;102(6):1120-1137. doi: 10.1111/mmi.13540. Epub 2016 Oct 20.


RNA polymerase supply and flux through the lac operon in Escherichia coli.

Sendy B, Lee DJ, Busby SJ, Bryant JA.

Philos Trans R Soc Lond B Biol Sci. 2016 Nov 5;371(1707). pii: 20160080. doi: 10.1098/rstb.2016.0080.


Local and global regulation of transcription initiation in bacteria.

Browning DF, Busby SJ.

Nat Rev Microbiol. 2016 Oct;14(10):638-50. doi: 10.1038/nrmicro.2016.103. Epub 2016 Aug 8. Review.


Silencing of DNase Colicin E8 Gene Expression by a Complex Nucleoprotein Assembly Ensures Timely Colicin Induction.

Kamenšek S, Browning DF, Podlesek Z, Busby SJ, Žgur-Bertok D, Butala M.

PLoS Genet. 2015 Jun 26;11(6):e1005354. doi: 10.1371/journal.pgen.1005354. eCollection 2015 Jun.


Evolution of bacterial transcription factors: how proteins take on new tasks, but do not always stop doing the old ones.

Visweswariah SS, Busby SJ.

Trends Microbiol. 2015 Aug;23(8):463-7. doi: 10.1016/j.tim.2015.04.009. Epub 2015 May 20. Review.


Host attachment and fluid shear are integrated into a mechanical signal regulating virulence in Escherichia coli O157:H7.

Alsharif G, Ahmad S, Islam MS, Shah R, Busby SJ, Krachler AM.

Proc Natl Acad Sci U S A. 2015 Apr 28;112(17):5503-8. doi: 10.1073/pnas.1422986112. Epub 2015 Apr 13.


Expression of different bacterial cytotoxins is controlled by two global transcription factors, CRP and Fis, that co-operate in a shared-recruitment mechanism.

Rossiter AE, Godfrey RE, Connolly JA, Busby SJ, Henderson IR, Browning DF.

Biochem J. 2015 Mar 1;466(2):323-35. doi: 10.1042/BJ20141315.


Chromosome position effects on gene expression in Escherichia coli K-12.

Bryant JA, Sellars LE, Busby SJ, Lee DJ.

Nucleic Acids Res. 2014 Oct;42(18):11383-92. doi: 10.1093/nar/gku828. Epub 2014 Sep 10.


Spacing requirements for Class I transcription activation in bacteria are set by promoter elements.

Zhou Y, Kolb A, Busby SJ, Wang YP.

Nucleic Acids Res. 2014 Aug;42(14):9209-16. doi: 10.1093/nar/gku625. Epub 2014 Jul 17.


Microarray analysis of the Ler regulon in enteropathogenic and enterohaemorrhagic Escherichia coli strains.

Bingle LE, Constantinidou C, Shaw RK, Islam MS, Patel M, Snyder LA, Lee DJ, Penn CW, Busby SJ, Pallen MJ.

PLoS One. 2014 Jan 14;9(1):e80160. doi: 10.1371/journal.pone.0080160. eCollection 2014.


Genetic inactivation of acrAB or inhibition of efflux induces expression of ramA.

Lawler AJ, Ricci V, Busby SJ, Piddock LJ.

J Antimicrob Chemother. 2013 Jul;68(7):1551-7. doi: 10.1093/jac/dkt069. Epub 2013 Mar 14.


Two DNA sites for MelR in the same orientation are sufficient for optimal MelR-dependent repression at the Escherichia coli melR promoter.

Elrobh MS, Webster CL, Samarasinghe S, Durose D, Busby SJ.

FEMS Microbiol Lett. 2013 Jan;338(1):62-7. doi: 10.1111/1574-6968.12027. Epub 2012 Nov 8.


Repression by cyclic AMP receptor protein at a distance.

Lee DJ, Busby SJ.

MBio. 2012 Sep 11;3(5):e00289-12. doi: 10.1128/mBio.00289-12. Print 2012.


Regulation of RamA by RamR in Salmonella enterica serovar Typhimurium: isolation of a RamR superrepressor.

Ricci V, Busby SJ, Piddock LJ.

Antimicrob Agents Chemother. 2012 Nov;56(11):6037-40. doi: 10.1128/AAC.01320-12. Epub 2012 Sep 4.


Double locking of an Escherichia coli promoter by two repressors prevents premature colicin expression and cell lysis.

Butala M, Sonjak S, Kamenšek S, Hodošček M, Browning DF, Žgur-Bertok D, Busby SJ.

Mol Microbiol. 2012 Oct;86(1):129-39. doi: 10.1111/j.1365-2958.2012.08179.x. Epub 2012 Aug 13.


Activating transcription in bacteria.

Lee DJ, Minchin SD, Busby SJ.

Annu Rev Microbiol. 2012;66:125-52. doi: 10.1146/annurev-micro-092611-150012. Epub 2012 Jun 15. Review.


Location and dynamics of an active promoter in Escherichia coli K-12.

Sánchez-Romero MA, Lee DJ, Sánchez-Morán E, Busby SJ.

Biochem J. 2012 Jan 1;441(1):481-5. doi: 10.1042/BJ20111258.


Interconversion between bound and free conformations of LexA orchestrates the bacterial SOS response.

Butala M, Klose D, Hodnik V, Rems A, Podlesek Z, Klare JP, Anderluh G, Busby SJ, Steinhoff HJ, Zgur-Bertok D.

Nucleic Acids Res. 2011 Aug;39(15):6546-57. doi: 10.1093/nar/gkr265. Epub 2011 May 16.


Transcription of the plasmid-encoded toxin gene from enteroaggregative Escherichia coli is regulated by a novel co-activation mechanism involving CRP and Fis.

Rossiter AE, Browning DF, Leyton DL, Johnson MD, Godfrey RE, Wardius CA, Desvaux M, Cunningham AF, Ruiz-Perez F, Nataro JP, Busby SJ, Henderson IR.

Mol Microbiol. 2011 Jul;81(1):179-91. doi: 10.1111/j.1365-2958.2011.07685.x. Epub 2011 May 18.


An HcpR homologue from Desulfovibrio desulfuricans and its possible role in nitrate reduction and nitrosative stress.

Cadby IT, Busby SJ, Cole JA.

Biochem Soc Trans. 2011 Jan;39(1):224-9. doi: 10.1042/BST0390224.


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.


Organization of the LEE1 operon regulatory region of enterohaemorrhagic Escherichia coli O157:H7 and activation by GrlA.

Islam MS, Bingle LE, Pallen MJ, Busby SJ.

Mol Microbiol. 2011 Jan;79(2):468-83. doi: 10.1111/j.1365-2958.2010.07460.x. Epub 2010 Nov 21.


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.


SepL resembles an aberrant effector in binding to a class 1 type III secretion chaperone and carrying an N-terminal secretion signal.

Younis R, Bingle LE, Rollauer S, Munera D, Busby SJ, Johnson S, Deane JE, Lea SM, Frankel G, Pallen MJ.

J Bacteriol. 2010 Nov;192(22):6093-8. doi: 10.1128/JB.00760-10. Epub 2010 Sep 10.


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.


Unusual organization, complexity and redundancy at the Escherichia coli hcp-hcr operon promoter.

Chismon DL, Browning DF, Farrant GK, Busby SJ.

Biochem J. 2010 Aug 15;430(1):61-8. doi: 10.1042/BJ20100623.


Down-regulation of the Escherichia coli K-12 nrf promoter by binding of the NsrR nitric oxide-sensing transcription repressor to an upstream site.

Browning DF, Lee DJ, Spiro S, Busby SJ.

J Bacteriol. 2010 Jul;192(14):3824-8. doi: 10.1128/JB.00218-10. Epub 2010 May 14.


Targets for the MalI repressor at the divergent Escherichia coli K-12 malX-malI promoters.

Lloyd GS, Godfrey RE, Busby SJ.

FEMS Microbiol Lett. 2010 Apr;305(1):28-34. doi: 10.1111/j.1574-6968.2010.01907.x. Epub 2010 Jan 20.


Gene doctoring: a method for recombineering in laboratory and pathogenic Escherichia coli strains.

Lee DJ, Bingle LE, Heurlier K, Pallen MJ, Penn CW, Busby SJ, Hobman JL.

BMC Microbiol. 2009 Dec 9;9:252. doi: 10.1186/1471-2180-9-252.


Activation of sigma 28-dependent transcription in Escherichia coli by the cyclic AMP receptor protein requires an unusual promoter organization.

Hollands K, Lee DJ, Lloyd GS, Busby SJ.

Mol Microbiol. 2010 Mar;75(5):1098-111. doi: 10.1111/j.1365-2958.2009.06913.x. Epub 2009 Oct 15.


A global view of Escherichia coli Rsd protein and its interactions.

Piper SE, Mitchell JE, Lee DJ, Busby SJ.

Mol Biosyst. 2009 Dec;5(12):1943-7. doi: 10.1039/B904955j. Epub 2009 Sep 14.


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.


Downregulation of the Escherichia coli guaB promoter by upstream-bound cyclic AMP receptor protein.

Husnain SI, Busby SJ, Thomas MS.

J Bacteriol. 2009 Oct;191(19):6094-104. doi: 10.1128/JB.00672-09. Epub 2009 Jul 24.


Characterization of multiple promoters and transcript stability in the sacB-sacC gene cluster in Zymomonas mobilis.

Senthilkumar V, Rajendhran J, Busby SJ, Gunasekaran P.

Arch Microbiol. 2009 Jun;191(6):529-41. doi: 10.1007/s00203-009-0479-6. Epub 2009 May 5.


More pieces in the promoter jigsaw: recognition of -10 regions by alternative sigma factors.

Busby SJ.

Mol Microbiol. 2009 May;72(4):809-11. doi: 10.1111/j.1365-2958.2009.06692.x. Epub 2009 Apr 17.

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