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For: Zafar MA, Carabetta VJ, Mandel MJ, Silhavy TJ. Transcriptional occlusion caused by overlapping promoters. Proc Natl Acad Sci U S A 2014;111:1557-61. [PMID: 24474781 DOI: 10.1073/pnas.1323413111] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
Number Cited by Other Article(s)
1
Bray AS, Broberg CA, Hudson AW, Wu W, Nagpal RK, Islam M, Valencia-Bacca JD, Shahid F, Hernandez GE, Nutter NA, Walker KA, Bennett EF, Young TM, Barnes AJ, Ornelles DA, Miller VL, Zafar MA. Klebsiella pneumoniae employs a type VI secretion system to overcome microbiota-mediated colonization resistance. Nat Commun 2025;16:940. [PMID: 39843522 PMCID: PMC11754592 DOI: 10.1038/s41467-025-56309-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2024] [Accepted: 01/15/2025] [Indexed: 01/24/2025]  Open
2
Bouillet S, Bauer TS, Gottesman S. RpoS and the bacterial general stress response. Microbiol Mol Biol Rev 2024;88:e0015122. [PMID: 38411096 PMCID: PMC10966952 DOI: 10.1128/mmbr.00151-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/28/2024]  Open
3
Petrova O, Semenova E, Parfirova O, Tsers I, Gogoleva N, Gogolev Y, Nikolaichik Y, Gorshkov V. RpoS-Regulated Genes and Phenotypes in the Phytopathogenic Bacterium Pectobacterium atrosepticum. Int J Mol Sci 2023;24:17348. [PMID: 38139177 PMCID: PMC10743746 DOI: 10.3390/ijms242417348] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2023] [Revised: 12/04/2023] [Accepted: 12/08/2023] [Indexed: 12/24/2023]  Open
4
Adams J, Hoang J, Petroni E, Ashby E, Hardin J, Stoebel DM. The timing of transcription of RpoS-dependent genes varies across multiple stresses in Escherichia coli K-12. mSystems 2023;8:e0066323. [PMID: 37623321 PMCID: PMC10654073 DOI: 10.1128/msystems.00663-23] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2023] [Accepted: 07/14/2023] [Indexed: 08/26/2023]  Open
5
Westfall AK, Gopalan SS, Perry BW, Adams RH, Saviola AJ, Mackessy SP, Castoe TA. Single-Cell Heterogeneity in Snake Venom Expression Is Hardwired by Co-Option of Regulators from Progressively Activated Pathways. Genome Biol Evol 2023;15:evad109. [PMID: 37311204 PMCID: PMC10289209 DOI: 10.1093/gbe/evad109] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2023] [Revised: 05/31/2023] [Accepted: 06/07/2023] [Indexed: 06/15/2023]  Open
6
Grassmann AA, Tokarz R, Golino C, McLain MA, Groshong AM, Radolf JD, Caimano MJ. BosR and PlzA reciprocally regulate RpoS function to sustain Borrelia burgdorferi in ticks and mammals. J Clin Invest 2023;133:e166710. [PMID: 36649080 PMCID: PMC9974103 DOI: 10.1172/jci166710] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2022] [Accepted: 01/10/2023] [Indexed: 01/18/2023]  Open
7
Hudson AW, Barnes AJ, Bray AS, Ornelles DA, Zafar MA. Klebsiella pneumoniae l-Fucose Metabolism Promotes Gastrointestinal Colonization and Modulates Its Virulence Determinants. Infect Immun 2022;90:e0020622. [PMID: 36129299 PMCID: PMC9584338 DOI: 10.1128/iai.00206-22] [Citation(s) in RCA: 30] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
8
John J, Jabbar J, Badjatia N, Rossi MJ, Lai WKM, Pugh BF. Genome-wide promoter assembly in E. coli measured at single-base resolution. Genome Res 2022;32:878-892. [PMID: 35483960 PMCID: PMC9104697 DOI: 10.1101/gr.276544.121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2021] [Accepted: 03/19/2022] [Indexed: 11/04/2022]
9
Kim SI, Kim E, Yoon H. σS-Mediated Stress Response Induced by Outer Membrane Perturbation Dampens Virulence in Salmonella enterica serovar Typhimurium. Front Microbiol 2021;12:750940. [PMID: 34659184 PMCID: PMC8516096 DOI: 10.3389/fmicb.2021.750940] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2021] [Accepted: 08/30/2021] [Indexed: 12/13/2022]  Open
10
Regulatory small RNA, Qrr2 is expressed independently of sigma factor-54 and can function as the sole Qrr sRNA to control quorum sensing in Vibrio parahaemolyticus. J Bacteriol 2021;204:e0035021. [PMID: 34633869 DOI: 10.1128/jb.00350-21] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
11
Wang Z, Zhao S, Li Y, Zhang K, Mo F, Zhang J, Hou Y, He L, Liu Z, Wang Y, Xu Y, Wang H, Buck M, Matthews SJ, Liu B. RssB-mediated σS Activation is Regulated by a Two-Tier Mechanism via Phosphorylation and Adaptor Protein - IraD. J Mol Biol 2021;433:166757. [PMID: 33346011 DOI: 10.1016/j.jmb.2020.166757] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2020] [Revised: 12/03/2020] [Accepted: 12/07/2020] [Indexed: 11/15/2022]
12
Tunable Transcriptional Interference at the Endogenous Alcohol Dehydrogenase Gene Locus in Drosophila melanogaster. G3-GENES GENOMES GENETICS 2020;10:1575-1583. [PMID: 32213532 PMCID: PMC7202008 DOI: 10.1534/g3.119.400937] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
13
Retnoningrum DS, Santika IWM, Kesuma S, Ekowati SA, Riani C. Construction and Characterization of a Medium Copy Number Expression Vector Carrying Auto-Inducible dps Promoter to Overproduce a Bacterial Superoxide Dismutase in Escherichia coli. Mol Biotechnol 2019;61:231-240. [PMID: 30721405 DOI: 10.1007/s12033-018-00151-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
14
Stoian N, Kaganjo J, Zeilstra-Ryalls J. Resolving the roles of the Rhodobacter sphaeroides HemA and HemT 5-aminolevulinic acid synthases. Mol Microbiol 2018;110:1011-1029. [PMID: 30232811 DOI: 10.1111/mmi.14133] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2018] [Revised: 09/12/2018] [Accepted: 09/14/2018] [Indexed: 11/30/2022]
15
Prasse D, Schmitz RA. Small RNAs Involved in Regulation of Nitrogen Metabolism. Microbiol Spectr 2018;6:10.1128/microbiolspec.rwr-0018-2018. [PMID: 30027888 PMCID: PMC11633612 DOI: 10.1128/microbiolspec.rwr-0018-2018] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2018] [Indexed: 02/08/2023]  Open
16
The fight for invincibility: Environmental stress response mechanisms and Aeromonas hydrophila. Microb Pathog 2018;116:135-145. [PMID: 29355702 DOI: 10.1016/j.micpath.2018.01.023] [Citation(s) in RCA: 48] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2017] [Revised: 01/15/2018] [Accepted: 01/15/2018] [Indexed: 12/11/2022]
17
Genome-Wide Transcriptional Response to Varying RpoS Levels in Escherichia coli K-12. J Bacteriol 2017;199:JB.00755-16. [PMID: 28115545 DOI: 10.1128/jb.00755-16] [Citation(s) in RCA: 64] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2016] [Accepted: 01/12/2017] [Indexed: 01/31/2023]  Open
18
Cavaliere P, Norel F. Recent advances in the characterization of Crl, the unconventional activator of the stress sigma factor σS/RpoS. Biomol Concepts 2017;7:197-204. [PMID: 27180360 DOI: 10.1515/bmc-2016-0006] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2016] [Accepted: 03/29/2016] [Indexed: 11/15/2022]  Open
19
Sanchuki HBS, Gravina F, Rodrigues TE, Gerhardt ECM, Pedrosa FO, Souza EM, Raittz RT, Valdameri G, de Souza GA, Huergo LF. Dynamics of the Escherichia coli proteome in response to nitrogen starvation and entry into the stationary phase. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2016;1865:344-352. [PMID: 27939605 DOI: 10.1016/j.bbapap.2016.12.002] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2016] [Revised: 12/02/2016] [Accepted: 12/06/2016] [Indexed: 01/31/2023]
20
Grabowicz M, Silhavy TJ. Envelope Stress Responses: An Interconnected Safety Net. Trends Biochem Sci 2016;42:232-242. [PMID: 27839654 DOI: 10.1016/j.tibs.2016.10.002] [Citation(s) in RCA: 102] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2016] [Revised: 10/12/2016] [Accepted: 10/17/2016] [Indexed: 12/14/2022]
21
Ard R, Allshire RC. Transcription-coupled changes to chromatin underpin gene silencing by transcriptional interference. Nucleic Acids Res 2016;44:10619-10630. [PMID: 27613421 PMCID: PMC5159543 DOI: 10.1093/nar/gkw801] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2016] [Revised: 08/17/2016] [Accepted: 08/31/2016] [Indexed: 02/07/2023]  Open
22
Hao Y, Updegrove TB, Livingston NN, Storz G. Protection against deleterious nitrogen compounds: role of σS-dependent small RNAs encoded adjacent to sdiA. Nucleic Acids Res 2016;44:6935-48. [PMID: 27166377 PMCID: PMC5001591 DOI: 10.1093/nar/gkw404] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2016] [Accepted: 05/02/2016] [Indexed: 11/16/2022]  Open
23
The Emergence of 2-Oxoglutarate as a Master Regulator Metabolite. Microbiol Mol Biol Rev 2016;79:419-35. [PMID: 26424716 DOI: 10.1128/mmbr.00038-15] [Citation(s) in RCA: 196] [Impact Index Per Article: 21.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
24
Moreau PL, Loiseau L. Characterization of acetic acid-detoxifying Escherichia coli evolved under phosphate starvation conditions. Microb Cell Fact 2016;15:42. [PMID: 26895825 PMCID: PMC4759930 DOI: 10.1186/s12934-016-0441-7] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2015] [Accepted: 02/07/2016] [Indexed: 11/17/2022]  Open
25
Bonocora RP, Smith C, Lapierre P, Wade JT. Genome-Scale Mapping of Escherichia coli σ54 Reveals Widespread, Conserved Intragenic Binding. PLoS Genet 2015;11:e1005552. [PMID: 26425847 PMCID: PMC4591121 DOI: 10.1371/journal.pgen.1005552] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2015] [Accepted: 09/03/2015] [Indexed: 11/18/2022]  Open
26
Schaefer J, Engl C, Zhang N, Lawton E, Buck M. Genome wide interactions of wild-type and activator bypass forms of σ54. Nucleic Acids Res 2015;43:7280-91. [PMID: 26082500 PMCID: PMC4551910 DOI: 10.1093/nar/gkv597] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2015] [Accepted: 05/25/2015] [Indexed: 01/05/2023]  Open
27
Phaiboun A, Zhang Y, Park B, Kim M. Survival kinetics of starving bacteria is biphasic and density-dependent. PLoS Comput Biol 2015;11:e1004198. [PMID: 25838110 PMCID: PMC4383377 DOI: 10.1371/journal.pcbi.1004198] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2014] [Accepted: 02/16/2015] [Indexed: 11/19/2022]  Open
28
Lévi-Meyrueis C, Monteil V, Sismeiro O, Dillies MA, Kolb A, Monot M, Dupuy B, Duarte SS, Jagla B, Coppée JY, Beraud M, Norel F. Repressor activity of the RpoS/σS-dependent RNA polymerase requires DNA binding. Nucleic Acids Res 2015;43:1456-68. [PMID: 25578965 PMCID: PMC4330354 DOI: 10.1093/nar/gku1379] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]  Open
29
Ard R, Tong P, Allshire RC. Long non-coding RNA-mediated transcriptional interference of a permease gene confers drug tolerance in fission yeast. Nat Commun 2014;5:5576. [PMID: 25428589 PMCID: PMC4255232 DOI: 10.1038/ncomms6576] [Citation(s) in RCA: 69] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2014] [Accepted: 10/15/2014] [Indexed: 11/09/2022]  Open
30
The PqsR and RhlR transcriptional regulators determine the level of Pseudomonas quinolone signal synthesis in Pseudomonas aeruginosa by producing two different pqsABCDE mRNA isoforms. J Bacteriol 2014;196:4163-71. [PMID: 25225275 DOI: 10.1128/jb.02000-14] [Citation(s) in RCA: 52] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
31
Moreau PL. Protective role of the RpoE (σE) and Cpx envelope stress responses against gentamicin killing of nongrowing Escherichia coli incubated under aerobic, phosphate starvation conditions. FEMS Microbiol Lett 2014;357:151-6. [PMID: 25039943 DOI: 10.1111/1574-6968.12534] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2014] [Revised: 06/28/2014] [Accepted: 07/04/2014] [Indexed: 11/29/2022]  Open
32
Structure of the RNA polymerase assembly factor Crl and identification of its interaction surface with sigma S. J Bacteriol 2014;196:3279-88. [PMID: 25002538 DOI: 10.1128/jb.01910-14] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]  Open
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