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CRP Interacts Specifically With Sxy to Activate Transcription in Escherichia coli.

Søndberg E, Sinha AK, Gerdes K, Semsey S.

Front Microbiol. 2019 Aug 30;10:2053. doi: 10.3389/fmicb.2019.02053. eCollection 2019.


The E. coli HicB Antitoxin Contains a Structurally Stable Helix-Turn-Helix DNA Binding Domain.

Manav MC, Turnbull KJ, Jurėnas D, Garcia-Pino A, Gerdes K, Brodersen DE.

Structure. 2019 Sep 4. pii: S0969-2126(19)30279-5. doi: 10.1016/j.str.2019.08.008. [Epub ahead of print]


Megabenthic assemblages at the southern Central Indian Ridge - Spatial segregation of inactive hydrothermal vents from active-, periphery- and non-vent sites.

Gerdes KH, Martínez Arbizu P, Schwentner M, Freitag R, Schwarz-Schampera U, Brandt A, Kihara TC.

Mar Environ Res. 2019 Aug 25:104776. doi: 10.1016/j.marenvres.2019.104776. [Epub ahead of print]


Fatty acid starvation activates RelA by depleting lysine precursor pyruvate.

Sinha AK, Winther KS, Roghanian M, Gerdes K.

Mol Microbiol. 2019 Oct;112(4):1339-1349. doi: 10.1111/mmi.14366. Epub 2019 Aug 29.


Toxin-antitoxin operon kacAT of Klebsiella pneumoniae is regulated by conditional cooperativity via a W-shaped KacA-KacT complex.

Qian H, Yu H, Li P, Zhu E, Yao Q, Tai C, Deng Z, Gerdes K, He X, Gan J, Ou HY.

Nucleic Acids Res. 2019 Aug 22;47(14):7690-7702. doi: 10.1093/nar/gkz563.


Serine-Threonine Kinases Encoded by Split hipA Homologs Inhibit Tryptophanyl-tRNA Synthetase.

Vang Nielsen S, Turnbull KJ, Roghanian M, Bærentsen R, Semanjski M, Brodersen DE, Macek B, Gerdes K.

MBio. 2019 Jun 18;10(3). pii: e01138-19. doi: 10.1128/mBio.01138-19.


(p)ppGpp Regulates a Bacterial Nucleosidase by an Allosteric Two-Domain Switch.

Zhang YE, Bærentsen RL, Fuhrer T, Sauer U, Gerdes K, Brodersen DE.

Mol Cell. 2019 Jun 20;74(6):1239-1249.e4. doi: 10.1016/j.molcel.2019.03.035. Epub 2019 Apr 22.


Transcriptome-Wide Analysis of Protein-RNA and RNA-RNA Interactions in Pathogenic Bacteria.

Tree JJ, Gerdes K, Tollervey D.

Methods Enzymol. 2018;612:467-488. doi: 10.1016/bs.mie.2018.08.009. Epub 2018 Sep 22.


Ribosome Hibernation.

Prossliner T, Skovbo Winther K, Sørensen MA, Gerdes K.

Annu Rev Genet. 2018 Nov 23;52:321-348. doi: 10.1146/annurev-genet-120215-035130. Review.


The RES domain toxins of RES-Xre toxin-antitoxin modules induce cell stasis by degrading NAD+

Skjerning RB, Senissar M, Winther KS, Gerdes K, Brodersen DE.

Mol Microbiol. 2019 Jan;111(1):221-236. doi: 10.1111/mmi.14150. Epub 2018 Nov 11.


The kinases HipA and HipA7 phosphorylate different substrate pools in Escherichia coli to promote multidrug tolerance.

Semanjski M, Germain E, Bratl K, Kiessling A, Gerdes K, Macek B.

Sci Signal. 2018 Sep 11;11(547). pii: eaat5750. doi: 10.1126/scisignal.aat5750.


SLING: a tool to search for linked genes in bacterial datasets.

Horesh G, Harms A, Fino C, Parts L, Gerdes K, Heinz E, Thomson NR.

Nucleic Acids Res. 2018 Nov 30;46(21):e128. doi: 10.1093/nar/gky738.


Activation of the Stringent Response by Loading of RelA-tRNA Complexes at the Ribosomal A-Site.

Winther KS, Roghanian M, Gerdes K.

Mol Cell. 2018 Apr 5;70(1):95-105.e4. doi: 10.1016/j.molcel.2018.02.033.


Novel (p)ppGpp Binding and Metabolizing Proteins of Escherichia coli.

Zhang Y, Zborníková E, Rejman D, Gerdes K.

MBio. 2018 Mar 6;9(2). pii: e02188-17. doi: 10.1128/mBio.02188-17.


(p)ppGpp Controls Bacterial Persistence by Stochastic Induction of Toxin-Antitoxin Activity.

Maisonneuve E, Castro-Camargo M, Gerdes K.

Cell. 2018 Feb 22;172(5):1135. doi: 10.1016/j.cell.2018.02.023. No abstract available.


Toxins, Targets, and Triggers: An Overview of Toxin-Antitoxin Biology.

Harms A, Brodersen DE, Mitarai N, Gerdes K.

Mol Cell. 2018 Jun 7;70(5):768-784. doi: 10.1016/j.molcel.2018.01.003. Epub 2018 Feb 3. Review.


Prophages and Growth Dynamics Confound Experimental Results with Antibiotic-Tolerant Persister Cells.

Harms A, Fino C, Sørensen MA, Semsey S, Gerdes K.

MBio. 2017 Dec 12;8(6). pii: e01964-17. doi: 10.1128/mBio.01964-17.


Quantitative interpretation of impedance spectroscopy data on porous LSM electrodes using X-ray computed tomography and Bayesian model-based analysis.

Brunello GF, Epting WK, de Silva J, Salvador PA, Litster S, Finklea HO, Lee YL, Gerdes KR, Mebane DS.

Phys Chem Chem Phys. 2017 Sep 27;19(37):25334-25345. doi: 10.1039/c7cp04533f.


Ribosome-dependent Vibrio cholerae mRNAse HigB2 is regulated by a β-strand sliding mechanism.

Hadži S, Garcia-Pino A, Haesaerts S, Jurenas D, Gerdes K, Lah J, Loris R.

Nucleic Acids Res. 2017 May 5;45(8):4972-4983. doi: 10.1093/nar/gkx138.


HicA toxin of Escherichia coli derepresses hicAB transcription to selectively produce HicB antitoxin.

Turnbull KJ, Gerdes K.

Mol Microbiol. 2017 Jun;104(5):781-792. doi: 10.1111/mmi.13662. Epub 2017 Mar 21.


Peptide-nucleotide antibiotic Microcin C is a potent inducer of stringent response and persistence in both sensitive and producing cells.

Piskunova J, Maisonneuve E, Germain E, Gerdes K, Severinov K.

Mol Microbiol. 2017 May;104(3):463-471. doi: 10.1111/mmi.13640. Epub 2017 Feb 24.


Mechanisms of bacterial persistence during stress and antibiotic exposure.

Harms A, Maisonneuve E, Gerdes K.

Science. 2016 Dec 16;354(6318). pii: aaf4268. Review.


Hypothesis: type I toxin-antitoxin genes enter the persistence field-a feedback mechanism explaining membrane homoeostasis.

Gerdes K.

Philos Trans R Soc Lond B Biol Sci. 2016 Nov 5;371(1707). pii: 20160189. doi: 10.1098/rstb.2016.0189. Review.


Nanoionics and Nanocatalysts: Conformal Mesoporous Surface Scaffold for Cathode of Solid Oxide Fuel Cells.

Chen Y, Gerdes K, Song X.

Sci Rep. 2016 Sep 8;6:32997. doi: 10.1038/srep32997.


VapCs of Mycobacterium tuberculosis cleave RNAs essential for translation.

Winther K, Tree JJ, Tollervey D, Gerdes K.

Nucleic Acids Res. 2016 Nov 16;44(20):9860-9871. Epub 2016 Sep 5.


Microbiology: Pumping persisters.

Gerdes K, Semsey S.

Nature. 2016 Jun 2;534(7605):41-2. doi: 10.1038/nature18442. Epub 2016 May 25. No abstract available.


Rapid Curtailing of the Stringent Response by Toxin-Antitoxin Module-Encoded mRNases.

Tian C, Roghanian M, Jørgensen MG, Sneppen K, Sørensen MA, Gerdes K, Mitarai N.

J Bacteriol. 2016 Jun 27;198(14):1918-1926. doi: 10.1128/JB.00062-16. Print 2016 Jul 15.


Alarmone (p)ppGpp regulates the transition from pathogenicity to mutualism in Photorhabdus luminescens.

Bager R, Roghanian M, Gerdes K, Clarke DJ.

Mol Microbiol. 2016 May;100(4):735-47. doi: 10.1111/mmi.13345. Epub 2016 Mar 11.


Adenylylation of Gyrase and Topo IV by FicT Toxins Disrupts Bacterial DNA Topology.

Harms A, Stanger FV, Scheu PD, de Jong IG, Goepfert A, Glatter T, Gerdes K, Schirmer T, Dehio C.

Cell Rep. 2015 Sep 1;12(9):1497-507. doi: 10.1016/j.celrep.2015.07.056. Epub 2015 Aug 20.


Remarkable Functional Convergence: Alarmone ppGpp Mediates Persistence by Activating Type I and II Toxin-Antitoxins.

Gerdes K, Maisonneuve E.

Mol Cell. 2015 Jul 2;59(1):1-3. doi: 10.1016/j.molcel.2015.06.019.


Cell age dependent concentration of Escherichia coli divisome proteins analyzed with ImageJ and ObjectJ.

Vischer NO, Verheul J, Postma M, van den Berg van Saparoea B, Galli E, Natale P, Gerdes K, Luirink J, Vollmer W, Vicente M, den Blaauwen T.

Front Microbiol. 2015 Jun 11;6:586. doi: 10.3389/fmicb.2015.00586. eCollection 2015.


Recent functional insights into the role of (p)ppGpp in bacterial physiology.

Hauryliuk V, Atkinson GC, Murakami KS, Tenson T, Gerdes K.

Nat Rev Microbiol. 2015 May;13(5):298-309. doi: 10.1038/nrmicro3448. Epub 2015 Apr 8. Review.


Stochastic induction of persister cells by HipA through (p)ppGpp-mediated activation of mRNA endonucleases.

Germain E, Roghanian M, Gerdes K, Maisonneuve E.

Proc Natl Acad Sci U S A. 2015 Apr 21;112(16):5171-6. doi: 10.1073/pnas.1423536112. Epub 2015 Apr 6. Retraction in: Proc Natl Acad Sci U S A. 2019 May 28;116(22):11077.


Crystallization of two operator complexes from the Vibrio cholerae HigBA2 toxin-antitoxin module.

Hadzi S, Garcia-Pino A, Gerdes K, Lah J, Loris R.

Acta Crystallogr F Struct Biol Commun. 2015 Feb;71(Pt 2):226-33. doi: 10.1107/S2053230X15000746. Epub 2015 Jan 28.


Competing ParA structures space bacterial plasmids equally over the nucleoid.

Ietswaart R, Szardenings F, Gerdes K, Howard M.

PLoS Comput Biol. 2014 Dec 18;10(12):e1004009. doi: 10.1371/journal.pcbi.1004009. eCollection 2014 Dec.


CRP-dependent positive autoregulation and proteolytic degradation regulate competence activator Sxy of Escherichia coli.

Jaskólska M, Gerdes K.

Mol Microbiol. 2015 Mar;95(5):833-45. doi: 10.1111/mmi.12901. Epub 2015 Jan 24.


Molecular mechanisms underlying bacterial persisters.

Maisonneuve E, Gerdes K.

Cell. 2014 Apr 24;157(3):539-48. doi: 10.1016/j.cell.2014.02.050.


ZapE is a novel cell division protein interacting with FtsZ and modulating the Z-ring dynamics.

Marteyn BS, Karimova G, Fenton AK, Gazi AD, West N, Touqui L, Prevost MC, Betton JM, Poyraz O, Ladant D, Gerdes K, Sansonetti PJ, Tang CM.

MBio. 2014 Mar 4;5(2):e00022-14. doi: 10.1128/mBio.00022-14.


Antibiotics: Killing the survivors.

Gerdes K, Ingmer H.

Nature. 2013 Nov 21;503(7476):347-9. doi: 10.1038/nature12834. Epub 2013 Nov 13. No abstract available.


VapC20 of Mycobacterium tuberculosis cleaves the sarcin-ricin loop of 23S rRNA.

Winther KS, Brodersen DE, Brown AK, Gerdes K.

Nat Commun. 2013;4:2796. doi: 10.1038/ncomms3796.


Molecular mechanism of bacterial persistence by HipA.

Germain E, Castro-Roa D, Zenkin N, Gerdes K.

Mol Cell. 2013 Oct 24;52(2):248-54. doi: 10.1016/j.molcel.2013.08.045. Epub 2013 Oct 3.


A problem of persistence: still more questions than answers?

Balaban NQ, Gerdes K, Lewis K, McKinney JD.

Nat Rev Microbiol. 2013 Aug;11(8):587-91. Review.


Conditional cooperativity of toxin - antitoxin regulation can mediate bistability between growth and dormancy.

Cataudella I, Sneppen K, Gerdes K, Mitarai N.

PLoS Comput Biol. 2013;9(8):e1003174. doi: 10.1371/journal.pcbi.1003174. Epub 2013 Aug 29.


(p)ppGpp controls bacterial persistence by stochastic induction of toxin-antitoxin activity.

Maisonneuve E, Castro-Camargo M, Gerdes K.

Cell. 2013 Aug 29;154(5):1140-1150. doi: 10.1016/j.cell.2013.07.048. Retraction in: Cell. 2018 Feb 22;172(5):1135.


Crystallization of the HigBA2 toxin-antitoxin complex from Vibrio cholerae.

Hadži S, Garcia-Pino A, Martinez-Rodriguez S, Verschueren K, Christensen-Dalsgaard M, Gerdes K, Lah J, Loris R.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2013 Sep;69(Pt 9):1052-9. doi: 10.1107/S1744309113021490. Epub 2013 Aug 27.


Protein expression, crystallization and preliminary X-ray crystallographic analysis of the isolated Shigella flexneri VapC toxin.

Xu K, Dedic E, Cob-Cantal P, Dienemann C, Bøggild A, Winther KS, Gerdes K, Brodersen DE.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2013 Jul;69(Pt 7):762-5. doi: 10.1107/S1744309113014012. Epub 2013 Jun 28.


Direct interaction of FtsZ and MreB is required for septum synthesis and cell division in Escherichia coli.

Fenton AK, Gerdes K.

EMBO J. 2013 Jul 3;32(13):1953-65. doi: 10.1038/emboj.2013.129. Epub 2013 Jun 11.


Bacterial persistence and toxin-antitoxin loci.

Gerdes K, Maisonneuve E.

Annu Rev Microbiol. 2012;66:103-23. doi: 10.1146/annurev-micro-092611-150159. Review.


Lipopolysaccharide induction of autophagy is associated with enhanced bactericidal activity in Dictyostelium discoideum.

Pflaum K, Gerdes K, Yovo K, Callahan J, Snyder ML.

Biochem Biophys Res Commun. 2012 Jun 8;422(3):417-22. doi: 10.1016/j.bbrc.2012.05.006. Epub 2012 May 7.

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