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Here, we focus on the sRNA, named MavR (metabolism and virulence regulator), that is conserved among pathogenic Enterobacteriaceae. MavR is constitutively expressed under in vitro conditions that promote EHEC virulence gene expression. Using MS2-affinity purification coupled with RNA sequencing, the eutR transcript was identified as a putative target of MavR. EutR is a transcription factor that promotes expression of genes required for ethanolamine metabolism as well as virulence factors important for host colonization. MavR binds to the eutR coding sequence to protect the eutR transcript from RNase E-mediated degradation. Ultimately, MavR promotes EutR expression and in turn ethanolamine utilization and ethanolamine-dependent growth. RNAseq analyses revealed that MavR also affected expression of genes important for other metabolic pathways, motility, oxidative stress and attaching and effacing lesion formation, which contribute to EHEC colonization of the gastrointestinal tract. In support of the idea that MavR-dependent gene expression affects fitness during infection, deletion of mavR resulted in significant (\u223c10- to 100-fold) attenuation in colonization of the mammalian intestine. Altogether, these studies reveal an important, extensive, and robust phenotype for a bacterial sRNA in host-pathogen interactions.<\/jats:p>","DOI":"10.1093\/nar\/gkab863","type":"journal-article","created":{"date-parts":[[2021,9,15]],"date-time":"2021-09-15T03:12:37Z","timestamp":1631675557000},"page":"10988-11004","source":"Crossref","is-referenced-by-count":21,"title":["A pathogen-specific sRNA influences enterohemorrhagic <i>Escherichia coli<\/i> fitness and virulence in part by direct interaction with the transcript encoding the ethanolamine utilization regulatory factor EutR"],"prefix":"10.1093","volume":"49","author":[{"given":"Amber B","family":"Sauder","sequence":"first","affiliation":[{"name":"Department of Microbiology, Immunology and Cancer Biology, University of Virginia School of Medicine, Charlottesville, VA 22908, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7334-5347","authenticated-orcid":false,"given":"Melissa M","family":"Kendall","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Immunology and Cancer Biology, University of Virginia School of Medicine, Charlottesville, VA 22908, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2021,9,30]]},"reference":[{"key":"2021110313024774600_B1","doi-asserted-by":"crossref","first-page":"123","DOI":"10.1038\/nrmicro818","article-title":"Pathogenic Escherichia coli","volume":"2","author":"Kaper","year":"2004","journal-title":"Nat. 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Bakteriol."},{"key":"2021110313024774600_B5","doi-asserted-by":"crossref","first-page":"109","DOI":"10.1016\/S0966-842X(97)01000-7","article-title":"Interactions between enteropathogenic Escherichia coli and host epithelial cells","volume":"5","author":"Donnenberg","year":"1997","journal-title":"Trends Microbiol."},{"key":"2021110313024774600_B6","doi-asserted-by":"crossref","first-page":"180","DOI":"10.1136\/gut.50.2.180","article-title":"Intimin type influences the site of human intestinal mucosal colonisation by enterohaemorrhagic Escherichia coli O157:H7","volume":"50","author":"Fitzhenry","year":"2002","journal-title":"Gut"},{"key":"2021110313024774600_B7","doi-asserted-by":"crossref","first-page":"1466","DOI":"10.1128\/IAI.73.3.1466-1474.2005","article-title":"The locus of enterocyte effacement-encoded effector proteins all promote enterohemorrhagic Escherichia coli pathogenicity in infant rabbits","volume":"73","author":"Ritchie","year":"2005","journal-title":"Infect. Immun."},{"key":"2021110313024774600_B8","doi-asserted-by":"crossref","first-page":"7129","DOI":"10.1128\/IAI.71.12.7129-7139.2003","article-title":"Critical roles for stx2, eae, and tir in enterohemorrhagic Escherichia coli-induced diarrhea and intestinal inflammation in infant rabbits","volume":"71","author":"Ritchie","year":"2003","journal-title":"Infect. Immun."},{"key":"2021110313024774600_B9","doi-asserted-by":"crossref","first-page":"1907","DOI":"10.1084\/jem.188.10.1907","article-title":"Two enteropathogenic Escherichia coli type III secreted proteins, EspA and EspB, are virulence factors","volume":"188","author":"Abe","year":"1998","journal-title":"J. Exp. Med."},{"key":"2021110313024774600_B10","doi-asserted-by":"crossref","first-page":"4426","DOI":"10.1128\/jb.179.13.4426-4428.1997","article-title":"Versatile insertion plasmids for targeted genome manipulations in bacteria: isolation, deletion, and rescue of the pathogenicity island LEE of the Escherichia coli O157:H7 genome","volume":"179","author":"Posfai","year":"1997","journal-title":"J. Bacteriol."},{"key":"2021110313024774600_B11","doi-asserted-by":"crossref","first-page":"1420","DOI":"10.1111\/j.1365-2958.2011.07661.x","article-title":"Enteropathogenic and enterohaemorrhagic Escherichia coli: even more subversive elements","volume":"80","author":"Wong","year":"2011","journal-title":"Mol. Microbiol."},{"key":"2021110313024774600_B12","doi-asserted-by":"crossref","first-page":"1570","DOI":"10.1128\/IAI.66.4.1570-1578.1998","article-title":"Role of intimin and bundle-forming pili in enteropathogenic Escherichia coli adhesion to pediatric intestinal tissue in vitro","volume":"66","author":"Hicks","year":"1998","journal-title":"Infect. Immun."},{"key":"2021110313024774600_B13","doi-asserted-by":"crossref","first-page":"e01748-15","DOI":"10.1128\/mBio.01748-15","article-title":"What a dinner party! Mechanisms and functions of interkingdom signaling in host-pathogen associations","volume":"7","author":"Kendall","year":"2016","journal-title":"mBio"},{"key":"2021110313024774600_B14","doi-asserted-by":"crossref","first-page":"1052","DOI":"10.1038\/ismej.2015.17","article-title":"The host metabolite D-serine contributes to bacterial niche specificity through gene selection","volume":"9","author":"Connolly","year":"2015","journal-title":"ISME J."},{"key":"2021110313024774600_B15","doi-asserted-by":"crossref","first-page":"759","DOI":"10.1016\/j.chom.2014.11.005","article-title":"The gut commensal Bacteroides thetaiotaomicron exacerbates enteric infection through modification of the metabolic landscape","volume":"16","author":"Curtis","year":"2014","journal-title":"Cell Host Microbe"},{"key":"2021110313024774600_B16","doi-asserted-by":"crossref","first-page":"e00050-12","DOI":"10.1128\/mBio.00050-12","article-title":"Ethanolamine controls expression of genes encoding components involved in interkingdom signaling and virulence in enterohemorrhagic Escherichia coli O157:H7","volume":"3","author":"Kendall","year":"2012","journal-title":"mBio"},{"key":"2021110313024774600_B17","doi-asserted-by":"crossref","first-page":"113","DOI":"10.1038\/nature11623","article-title":"Fucose sensing regulates bacterial intestinal colonization","volume":"492","author":"Pacheco","year":"2012","journal-title":"Nature"},{"key":"2021110313024774600_B18","doi-asserted-by":"crossref","first-page":"6843","DOI":"10.1128\/JB.06141-11","article-title":"Hfq virulence regulation in enterohemorrhagic Escherichia coli O157:H7 strain 86-24","volume":"193","author":"Kendall","year":"2011","journal-title":"J. Bacteriol."},{"key":"2021110313024774600_B19","doi-asserted-by":"crossref","first-page":"199","DOI":"10.1016\/j.molcel.2014.05.006","article-title":"Identification of bacteriophage-encoded anti-sRNAs in pathogenic Escherichia coli","volume":"55","author":"Tree","year":"2014","journal-title":"Mol. Cell"},{"key":"2021110313024774600_B20","doi-asserted-by":"crossref","first-page":"a003798","DOI":"10.1101\/cshperspect.a003798","article-title":"Bacterial small RNA regulators: versatile roles and rapidly evolving variations","volume":"3","author":"Gottesman","year":"2011","journal-title":"Cold Spring Harb. Perspect. Biol."},{"key":"2021110313024774600_B21","doi-asserted-by":"crossref","first-page":"e00228-18","DOI":"10.1128\/JB.00228-18","article-title":"After the fact(or): post-transcriptional gene regulation in enterohemorrhagic Escherichia coli O157:H7","volume":"200","author":"Sauder","year":"2018","journal-title":"J. Bacteriol."},{"key":"2021110313024774600_B22","doi-asserted-by":"crossref","first-page":"880","DOI":"10.1016\/j.molcel.2011.08.022","article-title":"Regulation by small RNAs in bacteria: expanding frontiers","volume":"43","author":"Storz","year":"2011","journal-title":"Mol. Cell"},{"key":"2021110313024774600_B23","doi-asserted-by":"crossref","first-page":"e01025-13","DOI":"10.1128\/mBio.01025-13","article-title":"Posttranscriptional control of microbe-induced rearrangement of host cell actin","volume":"5","author":"Gruber","year":"2014","journal-title":"mBio"},{"key":"2021110313024774600_B24","doi-asserted-by":"crossref","first-page":"14210","DOI":"10.1073\/pnas.1902725116","article-title":"The sRNA DicF integrates oxygen sensing to enhance enterohemorrhagic Escherichia coli virulence via distinctive RNA control mechanisms","volume":"116","author":"Melson","year":"2019","journal-title":"Proc. Natl. Acad. Sci. 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USA"},{"key":"2021110313024774600_B26","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1093\/dnares\/8.1.11","article-title":"Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12","volume":"8","author":"Hayashi","year":"2001","journal-title":"DNA Res."},{"key":"2021110313024774600_B27","doi-asserted-by":"crossref","first-page":"529","DOI":"10.1038\/35054089","article-title":"Genome sequence of enterohaemorrhagic Escherichia coli O157:H7","volume":"409","author":"Perna","year":"2001","journal-title":"Nature"},{"key":"2021110313024774600_B28","doi-asserted-by":"crossref","first-page":"1286","DOI":"10.1128\/IAI.02918-14","article-title":"Global analysis of posttranscriptional regulation by GlmY and GlmZ in enterohemorrhagic Escherichia coli O157:H7","volume":"83","author":"Gruber","year":"2015","journal-title":"Infect. 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Microbiol."},{"key":"2021110313024774600_B30","doi-asserted-by":"crossref","first-page":"e54655","DOI":"10.7554\/eLife.54655","article-title":"Hfq CLASH Uncovers sRNA-target interaction networks linked to nutrient availability adaptation","volume":"9","author":"Iosub","year":"2020","journal-title":"eLife"},{"key":"2021110313024774600_B31","doi-asserted-by":"crossref","first-page":"473","DOI":"10.1080\/15476286.2016.1156830","article-title":"A game of tag: MAPS catches up on RNA interactomes","volume":"13","author":"Carrier","year":"2016","journal-title":"RNA Biol"},{"key":"2021110313024774600_B32","doi-asserted-by":"crossref","first-page":"251","DOI":"10.1016\/bs.mie.2018.09.006","article-title":"On the prowl: An in vivo method to identify RNA partners of a sRNA","volume":"612","author":"Carrier","year":"2018","journal-title":"Methods Enzymol."},{"key":"2021110313024774600_B33","doi-asserted-by":"crossref","first-page":"775","DOI":"10.1038\/nrmicro.2016.129","article-title":"Competing endogenous RNAs: a target-centric view of small RNA regulation in bacteria","volume":"14","author":"Bossi","year":"2016","journal-title":"Nat. Rev. Microbiol."},{"key":"2021110313024774600_B34","doi-asserted-by":"crossref","first-page":"3623","DOI":"10.1093\/nar\/gkr1156","article-title":"A conserved RpoS-dependent small RNA controls the synthesis of major porin OmpD","volume":"40","author":"Frohlich","year":"2012","journal-title":"Nucleic Acid Res."},{"key":"2021110313024774600_B35","doi-asserted-by":"crossref","first-page":"357","DOI":"10.1111\/mmi.13129","article-title":"DsrA regulatory RNA represses both hns and rbsD mRNAs through distinct mechanisms in Escherichia coli","volume":"98","author":"Lalaouna","year":"2015","journal-title":"Mol. Microbiol."},{"key":"2021110313024774600_B36","doi-asserted-by":"crossref","first-page":"840","DOI":"10.1038\/nsmb.1631","article-title":"Coding sequence targeting by MicC RNA reveals bacterial mRNA silencing downstream of translational initiation","volume":"16","author":"Pfeiffer","year":"2009","journal-title":"Nature Struct. Mol. Biol."},{"key":"2021110313024774600_B37","doi-asserted-by":"crossref","first-page":"6640","DOI":"10.1073\/pnas.120163297","article-title":"One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products","volume":"97","author":"Datsenko","year":"2000","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2021110313024774600_B38","doi-asserted-by":"crossref","first-page":"2555","DOI":"10.1038\/nprot.2006.480","article-title":"5\u2032 end cDNA amplification using classic RACE","volume":"1","author":"Scotto-Lavino","year":"2006","journal-title":"Nat. Protoc."},{"key":"2021110313024774600_B39","doi-asserted-by":"crossref","first-page":"1384","DOI":"10.1261\/rna.528007","article-title":"Improved native affinity purification of RNA","volume":"13","author":"Batey","year":"2007","journal-title":"RNA"},{"key":"2021110313024774600_B40","doi-asserted-by":"crossref","first-page":"e01852-16","DOI":"10.1128\/mBio.01852-16","volume":"7","author":"Carlson-Banning","year":"2016","journal-title":"mBio"},{"key":"2021110313024774600_B41","doi-asserted-by":"crossref","first-page":"3855","DOI":"10.1128\/jb.170.9.3855-3863.1988","article-title":"Ethanolamine utilization in Salmonella typhimurium","volume":"170","author":"Roof","year":"1988","journal-title":"J. Bacteriol."},{"key":"2021110313024774600_B42","doi-asserted-by":"crossref","first-page":"6634","DOI":"10.1128\/jb.174.20.6634-6643.1992","article-title":"Autogenous regulation of ethanolamine utilization by a transcriptional activator of the eut operon in Salmonella typhimurium","volume":"174","author":"Roof","year":"1992","journal-title":"J. Bacteriol."},{"key":"2021110313024774600_B43","doi-asserted-by":"crossref","first-page":"e1005278","DOI":"10.1371\/journal.ppat.1005278","article-title":"Ethanolamine signaling promotes Salmonella niche recognition and adaptation during infection","volume":"11","author":"Anderson","year":"2015","journal-title":"PLoS Pathog."},{"key":"2021110313024774600_B44","doi-asserted-by":"crossref","first-page":"365","DOI":"10.1111\/j.1462-2920.2010.02334.x","article-title":"Enterohaemorrhagic Escherichia coli gains a competitive advantage by using ethanolamine as a nitrogen source in the bovine intestinal content","volume":"13","author":"Bertin","year":"2011","journal-title":"Environ. Microbiol."},{"key":"2021110313024774600_B45","doi-asserted-by":"crossref","first-page":"2634","DOI":"10.1128\/IAI.01372-06","article-title":"Enterococcus faecalis mutations affecting virulence in the Caenorhabditis elegans model host","volume":"75","author":"Maadani","year":"2007","journal-title":"Infect. Immun."},{"key":"2021110313024774600_B46","doi-asserted-by":"crossref","first-page":"17480","DOI":"10.1073\/pnas.1107857108","article-title":"Intestinal inflammation allows Salmonella to use ethanolamine to compete with the microbiota","volume":"108","author":"Thiennimitr","year":"2011","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2021110313024774600_B47","doi-asserted-by":"crossref","first-page":"e00172-18","DOI":"10.1128\/IAI.00172-18","article-title":"The Ethanolamine Permease EutH Promotes Vacuole Adaptation of Salmonella enterica and Listeria monocytogenes during Macrophage Infection","volume":"86","author":"Anderson","year":"2018","journal-title":"Infect. Immun."},{"key":"2021110313024774600_B48","doi-asserted-by":"crossref","first-page":"e00137-20","DOI":"10.1128\/IAI.00137-20","article-title":"The Ethanolamine-Sensing Transcription Factor EutR Promotes Virulence and Transmission During Citrobacter rodentium Intestinal Infection","volume":"88","author":"Rowley","year":"2020","journal-title":"Infect. Immun."},{"key":"2021110313024774600_B49","doi-asserted-by":"crossref","first-page":"193","DOI":"10.1128\/IAI.00980-13","article-title":"Ethanolamine and choline promote expression of putative and characterized fimbriae in enterohemorrhagic Escherichia coli O157:H7","volume":"82","author":"Gonyar","year":"2014","journal-title":"Infect. Immun."},{"key":"2021110313024774600_B50","doi-asserted-by":"crossref","first-page":"4947","DOI":"10.1128\/JB.00937-13","article-title":"EutR is a direct regulator of genes that contribute to metabolism and virulence in enterohemorrhagic Escherichia coli O157:H7","volume":"195","author":"Luzader","year":"2013","journal-title":"J. Bacteriol."},{"key":"2021110313024774600_B51","doi-asserted-by":"crossref","first-page":"W119","DOI":"10.1093\/nar\/gku359","article-title":"CopraRNA and IntaRNA: predicting small RNA targets, networks and interaction domains","volume":"42","author":"Wright","year":"2014","journal-title":"Nucleic Acids Res."},{"key":"2021110313024774600_B52","doi-asserted-by":"crossref","first-page":"W25","DOI":"10.1093\/nar\/gky329","article-title":"Freiburg RNA tools: a central online resource for RNA-focused research and teaching","volume":"46","author":"Raden","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"2021110313024774600_B53","doi-asserted-by":"crossref","first-page":"W435","DOI":"10.1093\/nar\/gkx279","article-title":"IntaRNA 2.0: enhanced and customizable prediction of RNA-RNA interactions","volume":"45","author":"Mann","year":"2017","journal-title":"Nucleic Acids Res."},{"key":"2021110313024774600_B54","doi-asserted-by":"crossref","first-page":"2849","DOI":"10.1093\/bioinformatics\/btn544","article-title":"IntaRNA: efficient prediction of bacterial sRNA targets incorporating target site accessibility and seed regions","volume":"24","author":"Busch","year":"2008","journal-title":"Bioinformatics"},{"key":"2021110313024774600_B55","doi-asserted-by":"crossref","first-page":"3127","DOI":"10.1016\/j.celrep.2020.02.016","article-title":"Hierarchy in Hfq chaperon occupancy of small RNA targets plays a major role in their regulation","volume":"30","author":"Faigenbaum-Romm","year":"2020","journal-title":"Cell Rep."},{"key":"2021110313024774600_B56","doi-asserted-by":"crossref","first-page":"884","DOI":"10.1016\/j.molcel.2016.07.026","article-title":"Global mapping of small RNA-Target interactions in bacteria","volume":"63","author":"Melamed","year":"2016","journal-title":"Mol. Cell"},{"key":"2021110313024774600_B57","doi-asserted-by":"crossref","first-page":"1478","DOI":"10.15252\/embj.201490546","article-title":"Cross talk between ABC transporter mRNAs via a target mRNA-derived sponge of the GcvB small RNA","volume":"34","author":"Miyakoshi","year":"2015","journal-title":"EMBO J."},{"key":"2021110313024774600_B58","doi-asserted-by":"crossref","first-page":"5317","DOI":"10.1128\/JB.181.17.5317-5329.1999","article-title":"The 17-gene ethanolamine (eut) operon of Salmonella typhimurium encodes five homologues of carboxysome shell proteins","volume":"181","author":"Kofoid","year":"1999","journal-title":"J. Bacteriol."},{"key":"2021110313024774600_B59","doi-asserted-by":"crossref","first-page":"3316","DOI":"10.1128\/jb.171.6.3316-3323.1989","article-title":"Functions required for vitamin B12-dependent ethanolamine utilization in Salmonella typhimurium","volume":"171","author":"Roof","year":"1989","journal-title":"J. Bacteriol."},{"key":"2021110313024774600_B60","doi-asserted-by":"crossref","first-page":"7635","DOI":"10.1128\/JB.186.22.7635-7644.2004","article-title":"Evidence that a B12-adenosyl transferase is encoded within the ethanolamine operon of Salmonella enterica","volume":"186","author":"Sheppard","year":"2004","journal-title":"J. Bacteriol."},{"key":"2021110313024774600_B61","doi-asserted-by":"crossref","first-page":"1357","DOI":"10.1128\/jb.177.5.1357-1366.1995","article-title":"Ethanolamine utilization in Salmonella typhimurium: nucleotide sequence, protein expression, and mutational analysis of the cchA cchB eutE eutJ eutG eutH gene cluster","volume":"177","author":"Stojiljkovic","year":"1995","journal-title":"J. Bacteriol."},{"key":"2021110313024774600_B62","doi-asserted-by":"crossref","first-page":"1287","DOI":"10.1128\/jb.176.5.1287-1296.1994","article-title":"A rationale for autoinduction of a transcriptional activator: ethanolamine ammonia-lyase (EutBC) and the operon activator (EutR) compete for adenosyl-cobalamin in Salmonella typhimurium","volume":"176","author":"Sheppard","year":"1994","journal-title":"J. Bacteriol."},{"key":"2021110313024774600_B63","doi-asserted-by":"crossref","first-page":"937","DOI":"10.1126\/science.1255091","article-title":"Riboswitches. A riboswitch-containing sRNA controls gene expression by sequestration of a response regulator","volume":"345","author":"DebRoy","year":"2014","journal-title":"Science"},{"key":"2021110313024774600_B64","doi-asserted-by":"crossref","first-page":"940","DOI":"10.1126\/science.1255083","article-title":"Riboswitches. 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Sci."},{"key":"2021110313024774600_B72","doi-asserted-by":"crossref","first-page":"3","DOI":"10.1016\/j.molcel.2016.12.015","article-title":"Ribonuclease E: Chopping knife and sculpting tool","volume":"65","author":"Belasco","year":"2017","journal-title":"Mol. Cell"},{"key":"2021110313024774600_B73","doi-asserted-by":"crossref","first-page":"467","DOI":"10.1038\/nrm2917","article-title":"All things must pass: contrasts and commonalities in eukaryotic and bacterial mRNA decay","volume":"11","author":"Belasco","year":"2010","journal-title":"Nat. Rev. Mol. 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Bacteriol."},{"key":"2021110313024774600_B77","doi-asserted-by":"crossref","first-page":"26391","DOI":"10.1074\/jbc.270.44.26391","article-title":"Evidence for an RNA binding region in the Escherichia coli processing endoribonuclease RNase E","volume":"270","author":"Taraseviciene","year":"1995","journal-title":"J. Biol. Chem."},{"key":"2021110313024774600_B78","doi-asserted-by":"crossref","first-page":"777","DOI":"10.1046\/j.1365-2958.2003.03862.x","article-title":"The RNA degradosome and poly(A) polymerase of Escherichia coli are required in vivo for the degradation of small mRNA decay intermediates containing REP-stabilizers","volume":"51","author":"Khemici","year":"2004","journal-title":"Mol. 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Bacteriol."},{"key":"2021110313024774600_B84","doi-asserted-by":"crossref","first-page":"7345","DOI":"10.1128\/jb.176.23.7345-7351.1994","article-title":"The FlhD\/FlhC complex, a transcriptional activator of the Escherichia coli flagellar class II operons","volume":"176","author":"Liu","year":"1994","journal-title":"J. Bacteriol."},{"key":"2021110313024774600_B85","doi-asserted-by":"crossref","first-page":"5186","DOI":"10.1128\/jb.177.17.5186-5188.1995","article-title":"The C-terminal region of the alpha subunit of Escherichia coli RNA polymerase is required for transcriptional activation of the flagellar level II operons by the FlhD\/FlhC complex","volume":"177","author":"Liu","year":"1995","journal-title":"J. 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Microbiol."},{"key":"2021110313024774600_B93","doi-asserted-by":"crossref","first-page":"1143","DOI":"10.1128\/IAI.01386-07","article-title":"Comparison of carbon nutrition for pathogenic and commensal Escherichia coli strains in the mouse intestine","volume":"76","author":"Fabich","year":"2008","journal-title":"Infect. 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Rev."},{"key":"2021110313024774600_B97","doi-asserted-by":"crossref","first-page":"1836","DOI":"10.1128\/IAI.73.3.1836-1846.2005","article-title":"Role for flagella but not intimin in the persistent infection of the gastrointestinal tissues of specific-pathogen-free chicks by Shiga toxin-negative Escherichia coli O157:H7","volume":"73","author":"Best","year":"2005","journal-title":"Infect. Immun."},{"key":"2021110313024774600_B98","doi-asserted-by":"crossref","first-page":"1962","DOI":"10.1128\/IAI.74.3.1962-1966.2006","article-title":"Reduced virulence of an fliC mutant of Shiga-toxigenic Escherichia coli O113:H21","volume":"74","author":"Rogers","year":"2006","journal-title":"Infect. Immun."},{"key":"2021110313024774600_B99","doi-asserted-by":"crossref","first-page":"1704","DOI":"10.1111\/bph.13428","article-title":"ROS in gastrointestinal inflammation: Rescue or sabotage?","volume":"174","author":"Aviello","year":"2017","journal-title":"Br. J. Pharmacol."},{"key":"2021110313024774600_B100","doi-asserted-by":"crossref","first-page":"1519","DOI":"10.2174\/092986712799828283","article-title":"Reactive oxygen production induced by the gut microbiota: pharmacotherapeutic implications","volume":"19","author":"Jones","year":"2012","journal-title":"Curr. Med. Chem."},{"key":"2021110313024774600_B101","doi-asserted-by":"crossref","first-page":"1325","DOI":"10.1126\/science.1222195","article-title":"Regulated virulence controls the ability of a pathogen to compete with the gut microbiota","volume":"336","author":"Kamada","year":"2012","journal-title":"Science"},{"key":"2021110313024774600_B102","doi-asserted-by":"crossref","first-page":"1249","DOI":"10.1126\/science.aag3042","article-title":"Virulence factors enhance Citrobacter rodentium expansion through aerobic respiration","volume":"353","author":"Lopez","year":"2016","journal-title":"Science"},{"key":"2021110313024774600_B103","doi-asserted-by":"crossref","first-page":"537","DOI":"10.1016\/j.micinf.2009.02.009","article-title":"Potential role of Noxes in the protection of mucosae: H(2)O(2) as a bacterial repellent","volume":"11","author":"Botteaux","year":"2009","journal-title":"Microbes Infect."},{"key":"2021110313024774600_B104","doi-asserted-by":"crossref","first-page":"47","DOI":"10.1016\/j.chom.2012.05.018","article-title":"Mucosal reactive oxygen species decrease virulence by disrupting Campylobacter jejuni phosphotyrosine signaling","volume":"12","author":"Corcionivoschi","year":"2012","journal-title":"Cell Host Microbe"},{"key":"2021110313024774600_B105","doi-asserted-by":"crossref","first-page":"11","DOI":"10.5483\/BMBRep.2011.44.1.11","article-title":"Small RNA biology is systems biology","volume":"44","author":"Jost","year":"2011","journal-title":"BMB Rep."},{"key":"2021110313024774600_B106","doi-asserted-by":"crossref","first-page":"e229","DOI":"10.1371\/journal.pbio.0050229","article-title":"Quantitative characteristics of gene regulation by small RNA","volume":"5","author":"Levine","year":"2007","journal-title":"PLoS Biol."},{"key":"2021110313024774600_B107","doi-asserted-by":"crossref","first-page":"5601","DOI":"10.1128\/jb.171.10.5601-5606.1989","article-title":"Regulation of the phosphate regulon of Escherichia coli: analysis of mutant phoB and phoR genes causing different phenotypes","volume":"171","author":"Yamada","year":"1989","journal-title":"J. Bacteriol."},{"key":"2021110313024774600_B108","doi-asserted-by":"crossref","first-page":"1144","DOI":"10.1111\/j.1365-2958.2011.07751.x","article-title":"Pervasive post-transcriptional control of genes involved in amino acid metabolism by the Hfq-dependent GcvB small RNA","volume":"81","author":"Sharma","year":"2011","journal-title":"Mol. Microbiol."},{"key":"2021110313024774600_B109","doi-asserted-by":"crossref","first-page":"6907","DOI":"10.1093\/nar\/gkw358","article-title":"sRNA roles in regulating transcriptional regulators: Lrp and SoxS regulation by sRNAs","volume":"44","author":"Lee","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"2021110313024774600_B110","doi-asserted-by":"crossref","first-page":"e00204-20","DOI":"10.1128\/mSystems.00204-20","article-title":"Overexpression of the Small RNA PA0805.1 in Pseudomonas aeruginosa modulates the expression of a large set of genes and proteins, resulting in altered motility, cytotoxicity, and tobramycin resistance","volume":"5","author":"Coleman","year":"2020","journal-title":"mSystems"},{"key":"2021110313024774600_B111","doi-asserted-by":"crossref","first-page":"7157","DOI":"10.1128\/JB.00838-09","article-title":"Comparative genomics of ethanolamine utilization","volume":"191","author":"Tsoy","year":"2009","journal-title":"J. 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