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Structural basis for transcription activation by Crl through tethering of σS and RNA polymerase.

Cartagena AJ, Banta AB, Sathyan N, Ross W, Gourse RL, Campbell EA, Darst SA.

Proc Natl Acad Sci U S A. 2019 Sep 17;116(38):18923-18927. doi: 10.1073/pnas.1910827116. Epub 2019 Sep 4.


Genome-wide effects on Escherichia coli transcription from ppGpp binding to its two sites on RNA polymerase.

Sanchez-Vazquez P, Dewey CN, Kitten N, Ross W, Gourse RL.

Proc Natl Acad Sci U S A. 2019 Apr 23;116(17):8310-8319. doi: 10.1073/pnas.1819682116. Epub 2019 Apr 10.


Transcriptional Responses to ppGpp and DksA.

Gourse RL, Chen AY, Gopalkrishnan S, Sanchez-Vazquez P, Myers A, Ross W.

Annu Rev Microbiol. 2018 Sep 8;72:163-184. doi: 10.1146/annurev-micro-090817-062444. Review.


Linking glucose metabolism to the stringent response through the PTS.

Gourse RL, Bouveret E.

Proc Natl Acad Sci U S A. 2018 Jul 17;115(29):7454-7455. doi: 10.1073/pnas.1809265115. Epub 2018 Jul 3. No abstract available.


DksA and ppGpp Regulate the σS Stress Response by Activating Promoters for the Small RNA DsrA and the Anti-Adapter Protein IraP.

Girard ME, Gopalkrishnan S, Grace ED, Halliday JA, Gourse RL, Herman C.

J Bacteriol. 2017 Dec 20;200(2). pii: e00463-17. doi: 10.1128/JB.00463-17. Print 2018 Jan 15.


Dissection of the molecular circuitry controlling virulence in Francisella tularensis.

Cuthbert BJ, Ross W, Rohlfing AE, Dove SL, Gourse RL, Brennan RG, Schumacher MA.

Genes Dev. 2017 Aug 1;31(15):1549-1560. doi: 10.1101/gad.303701.117. Epub 2017 Sep 1.


Roles of Transcriptional and Translational Control Mechanisms in Regulation of Ribosomal Protein Synthesis in Escherichia coli.

Burgos HL, O'Connor K, Sanchez-Vazquez P, Gourse RL.

J Bacteriol. 2017 Oct 3;199(21). pii: e00407-17. doi: 10.1128/JB.00407-17. Print 2017 Nov 1.


TraR directly regulates transcription initiation by mimicking the combined effects of the global regulators DksA and ppGpp.

Gopalkrishnan S, Ross W, Chen AY, Gourse RL.

Proc Natl Acad Sci U S A. 2017 Jul 11;114(28):E5539-E5548. doi: 10.1073/pnas.1704105114. Epub 2017 Jun 26.


Classic Spotlights: Selected Highlights from the First 100 Years of the Journal of Bacteriology.

Armitage JP, Becker A, Christie PJ, de Boer PAJ, DiRita VJ, Gourse RL, Henkin TM, Margolin W, Metcalf WW, Mullineaux CW, O'Toole GA, Parkinson JS, Schneewind O, Silhavy TJ, Stock AM, Zhulin IB.

J Bacteriol. 2017 Jun 13;199(13). pii: e00062-17. doi: 10.1128/JB.00062-17. Print 2017 Jul 1. No abstract available.


Open complex DNA scrunching: A key to transcription start site selection and promoter escape.

Winkelman JT, Gourse RL.

Bioessays. 2017 Feb;39(2). doi: 10.1002/bies.201600193. Epub 2017 Jan 4. Review.


Colocalization of distant chromosomal loci in space in E. coli: a bacterial nucleolus.

Gaal T, Bratton BP, Sanchez-Vazquez P, Sliwicki A, Sliwicki K, Vegel A, Pannu R, Gourse RL.

Genes Dev. 2016 Oct 15;30(20):2272-2285.


Classic Spotlight: the Heat Shock Response and the Discovery of Alternative Sigma Factors in Escherichia coli.

Gourse RL.

J Bacteriol. 2016 Sep 9;198(19):2550. doi: 10.1128/JB.00576-16. Print 2016 Oct 1. No abstract available.


ppGpp Binding to a Site at the RNAP-DksA Interface Accounts for Its Dramatic Effects on Transcription Initiation during the Stringent Response.

Ross W, Sanchez-Vazquez P, Chen AY, Lee JH, Burgos HL, Gourse RL.

Mol Cell. 2016 Jun 16;62(6):811-823. doi: 10.1016/j.molcel.2016.04.029. Epub 2016 May 26.


Classic Spotlight: Studies of the Stringent Response.

Gourse RL, Crosson S.

J Bacteriol. 2016 May 27;198(12):1710. doi: 10.1128/JB.00230-16. Print 2016 Jun 15. No abstract available.


Classic Spotlight: Visualization of Bacterial Genes in Action.

Gourse RL, Condon C.

J Bacteriol. 2016 May 13;198(11):1554. doi: 10.1128/JB.00231-16. Print 2016 Jun 1. No abstract available.


Coexpression of Escherichia coli obgE, Encoding the Evolutionarily Conserved Obg GTPase, with Ribosomal Proteins L21 and L27.

Maouche R, Burgos HL, My L, Viala JP, Gourse RL, Bouveret E.

J Bacteriol. 2016 Jun 13;198(13):1857-1867. doi: 10.1128/JB.00159-16. Print 2016 Jul 1.


Open complex scrunching before nucleotide addition accounts for the unusual transcription start site of E. coli ribosomal RNA promoters.

Winkelman JT, Chandrangsu P, Ross W, Gourse RL.

Proc Natl Acad Sci U S A. 2016 Mar 29;113(13):E1787-95. doi: 10.1073/pnas.1522159113. Epub 2016 Mar 14.


Multiplexed protein-DNA cross-linking: Scrunching in transcription start site selection.

Winkelman JT, Vvedenskaya IO, Zhang Y, Zhang Y, Bird JG, Taylor DM, Gourse RL, Ebright RH, Nickels BE.

Science. 2016 Mar 4;351(6277):1090-3. doi: 10.1126/science.aad6881.


In vitro evidence that RNA Polymerase acetylation and acetyl phosphate-dependent CpxR phosphorylation affect cpxP transcription regulation.

Lima BP, Lennon CW, Ross W, Gourse RL, Wolfe AJ.

FEMS Microbiol Lett. 2016 Mar;363(5):fnw011. doi: 10.1093/femsle/fnw011. Epub 2016 Jan 19.


TRANSCRIPTION. Structures of the RNA polymerase-σ54 reveal new and conserved regulatory strategies.

Yang Y, Darbari VC, Zhang N, Lu D, Glyde R, Wang YP, Winkelman JT, Gourse RL, Murakami KS, Buck M, Zhang X.

Science. 2015 Aug 21;349(6250):882-5. doi: 10.1126/science.aab1478.


Crosslink Mapping at Amino Acid-Base Resolution Reveals the Path of Scrunched DNA in Initial Transcribing Complexes.

Winkelman JT, Winkelman BT, Boyce J, Maloney MF, Chen AY, Ross W, Gourse RL.

Mol Cell. 2015 Sep 3;59(5):768-80. doi: 10.1016/j.molcel.2015.06.037. Epub 2015 Aug 6.


Strategies from UW-Madison for rescuing biomedical research in the US.

Kimble J, Bement WM, Chang Q, Cox BL, Drinkwater NR, Gourse RL, Hoskins AA, Huttenlocher A, Kreeger PK, Lambert PF, Mailick MR, Miyamoto S, Moss RL, O'Connor-Giles KM, Roopra A, Saha K, Seidel HS.

Elife. 2015 Jun 30;4:e09305. doi: 10.7554/eLife.09305.


Activation of the σE-dependent stress pathway by conjugative TraR may anticipate conjugational stress.

Grace ED, Gopalkrishnan S, Girard ME, Blankschien MD, Ross W, Gourse RL, Herman C.

J Bacteriol. 2015 Mar;197(5):924-31. doi: 10.1128/JB.02279-14. Epub 2014 Dec 22.


Structure of the RNA polymerase assembly factor Crl and identification of its interaction surface with sigma S.

Banta AB, Cuff ME, Lin H, Myers AR, Ross W, Joachimiak A, Gourse RL.

J Bacteriol. 2014 Sep;196(18):3279-88. doi: 10.1128/JB.01910-14. Epub 2014 Jul 7.


A Rhodobacter sphaeroides protein mechanistically similar to Escherichia coli DksA regulates photosynthetic growth.

Lennon CW, Lemmer KC, Irons JL, Sellman MI, Donohue TJ, Gourse RL, Ross W.

MBio. 2014 Apr 29;5(3):e01105-14. doi: 10.1128/mBio.01105-14.


Key features of σS required for specific recognition by Crl, a transcription factor promoting assembly of RNA polymerase holoenzyme.

Banta AB, Chumanov RS, Yuan AH, Lin H, Campbell EA, Burgess RR, Gourse RL.

Proc Natl Acad Sci U S A. 2013 Oct 1;110(40):15955-60. doi: 10.1073/pnas.1311642110. Epub 2013 Sep 16.


Transcription of the Escherichia coli fatty acid synthesis operon fabHDG is directly activated by FadR and inhibited by ppGpp.

My L, Rekoske B, Lemke JJ, Viala JP, Gourse RL, Bouveret E.

J Bacteriol. 2013 Aug;195(16):3784-95. doi: 10.1128/JB.00384-13. Epub 2013 Jun 14.


RemA is a DNA-binding protein that activates biofilm matrix gene expression in Bacillus subtilis.

Winkelman JT, Bree AC, Bate AR, Eichenberger P, Gourse RL, Kearns DB.

Mol Microbiol. 2013 Jun;88(5):984-97. doi: 10.1111/mmi.12235. Epub 2013 May 7.


The magic spot: a ppGpp binding site on E. coli RNA polymerase responsible for regulation of transcription initiation.

Ross W, Vrentas CE, Sanchez-Vazquez P, Gaal T, Gourse RL.

Mol Cell. 2013 May 9;50(3):420-9. doi: 10.1016/j.molcel.2013.03.021. Epub 2013 Apr 25.


Direct interactions between the coiled-coil tip of DksA and the trigger loop of RNA polymerase mediate transcriptional regulation.

Lennon CW, Ross W, Martin-Tumasz S, Toulokhonov I, Vrentas CE, Rutherford ST, Lee JH, Butcher SE, Gourse RL.

Genes Dev. 2012 Dec 1;26(23):2634-46. doi: 10.1101/gad.204693.112.


CoSMoS unravels mysteries of transcription initiation.

Gourse RL, Landick R.

Cell. 2012 Feb 17;148(4):635-7. doi: 10.1016/j.cell.2012.01.042.


Suppression of a dnaKJ deletion by multicopy dksA results from non-feedback-regulated transcripts that originate upstream of the major dksA promoter.

Chandrangsu P, Wang L, Choi SH, Gourse RL.

J Bacteriol. 2012 Mar;194(6):1437-46. doi: 10.1128/JB.06726-11. Epub 2012 Jan 20.


Role of the coiled-coil tip of Escherichia coli DksA in promoter control.

Lee JH, Lennon CW, Ross W, Gourse RL.

J Mol Biol. 2012 Mar 2;416(4):503-17. doi: 10.1016/j.jmb.2011.12.028. Epub 2011 Dec 19.


The dksA promoter is negatively feedback regulated by DksA and ppGpp.

Chandrangsu P, Lemke JJ, Gourse RL.

Mol Microbiol. 2011 Jun;80(5):1337-48. doi: 10.1111/j.1365-2958.2011.07649.x. Epub 2011 Apr 17.


Direct regulation of Escherichia coli ribosomal protein promoters by the transcription factors ppGpp and DksA.

Lemke JJ, Sanchez-Vazquez P, Burgos HL, Hedberg G, Ross W, Gourse RL.

Proc Natl Acad Sci U S A. 2011 Apr 5;108(14):5712-7. doi: 10.1073/pnas.1019383108. Epub 2011 Mar 14.


An improved procedure for the purification of the Escherichia coli RNA polymerase omega subunit.

Vrentas CE, Gaal T, Burgess RR, Gourse RL.

Protein Expr Purif. 2010 Jun;71(2):190-4. doi: 10.1016/j.pep.2009.11.009. Epub 2009 Dec 4.


DksA and ppGpp directly regulate transcription of the Escherichia coli flagellar cascade.

Lemke JJ, Durfee T, Gourse RL.

Mol Microbiol. 2009 Dec;74(6):1368-79. doi: 10.1111/j.1365-2958.2009.06939.x. Epub 2009 Nov 2.


Escherichia coli DksA binds to Free RNA polymerase with higher affinity than to RNA polymerase in an open complex.

Lennon CW, Gaal T, Ross W, Gourse RL.

J Bacteriol. 2009 Sep;191(18):5854-8. doi: 10.1128/JB.00621-09. Epub 2009 Jul 17.


Super DksAs: substitutions in DksA enhancing its effects on transcription initiation.

Blankschien MD, Lee JH, Grace ED, Lennon CW, Halliday JA, Ross W, Gourse RL, Herman C.

EMBO J. 2009 Jun 17;28(12):1720-31. doi: 10.1038/emboj.2009.126. Epub 2009 May 7.


Allosteric control of Escherichia coli rRNA promoter complexes by DksA.

Rutherford ST, Villers CL, Lee JH, Ross W, Gourse RL.

Genes Dev. 2009 Jan 15;23(2):236-48. doi: 10.1101/gad.1745409.


Analysis of RNA polymerase-promoter complex formation.

Ross W, Gourse RL.

Methods. 2009 Jan;47(1):13-24. doi: 10.1016/j.ymeth.2008.10.018. Epub 2008 Oct 24. Review.


Crystal structure of Escherichia coli Rnk, a new RNA polymerase-interacting protein.

Lamour V, Rutherford ST, Kuznedelov K, Ramagopal UA, Gourse RL, Severinov K, Darst SA.

J Mol Biol. 2008 Nov 7;383(2):367-79. doi: 10.1016/j.jmb.2008.08.011. Epub 2008 Aug 12.


Advances in bacterial promoter recognition and its control by factors that do not bind DNA.

Haugen SP, Ross W, Gourse RL.

Nat Rev Microbiol. 2008 Jul;6(7):507-19. doi: 10.1038/nrmicro1912. Epub 2008 Jun 3. Review.


Fine structure of the promoter-sigma region 1.2 interaction.

Haugen SP, Ross W, Manrique M, Gourse RL.

Proc Natl Acad Sci U S A. 2008 Mar 4;105(9):3292-7. doi: 10.1073/pnas.0709513105. Epub 2008 Feb 19.


Still looking for the magic spot: the crystallographically defined binding site for ppGpp on RNA polymerase is unlikely to be responsible for rRNA transcription regulation.

Vrentas CE, Gaal T, Berkmen MB, Rutherford ST, Haugen SP, Vassylyev DG, Ross W, Gourse RL.

J Mol Biol. 2008 Mar 21;377(2):551-64. doi: 10.1016/j.jmb.2008.01.042. Epub 2008 Jan 26. Erratum in: J Mol Biol. 2008 Jun 20;379(5):1130.


ppGpp and DksA likely regulate the activity of the extracytoplasmic stress factor sigmaE in Escherichia coli by both direct and indirect mechanisms.

Costanzo A, Nicoloff H, Barchinger SE, Banta AB, Gourse RL, Ades SE.

Mol Microbiol. 2008 Feb;67(3):619-32. Epub 2007 Dec 12.


Magic spots cast a spell on DNA primase.

Gourse RL, Keck JL.

Cell. 2007 Mar 9;128(5):823-4.


Rapid responses of ribosomal RNA synthesis to nutrient shifts.

Suthers PF, Gourse RL, Yin J.

Biotechnol Bioeng. 2007 Aug 1;97(5):1230-45.


Effects of DksA, GreA, and GreB on transcription initiation: insights into the mechanisms of factors that bind in the secondary channel of RNA polymerase.

Rutherford ST, Lemke JJ, Vrentas CE, Gaal T, Ross W, Gourse RL.

J Mol Biol. 2007 Mar 2;366(4):1243-57. Epub 2006 Dec 12.


LexA represses CTXphi transcription by blocking access of the alpha C-terminal domain of RNA polymerase to promoter DNA.

Quinones M, Kimsey HH, Ross W, Gourse RL, Waldor MK.

J Biol Chem. 2006 Dec 22;281(51):39407-12. Epub 2006 Oct 17.

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