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Volumn 194, Issue 2, 2012, Pages 261-273

Effects on growth by changes of the balance between GreA, GreB, and DksA suggest mutual competition and functional redundancy in Escherichia coli

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; DKSA PROTEIN; GREA PROTEIN; GREB PROTEIN; RNA POLYMERASE; UNCLASSIFIED DRUG;

EID: 84855898808     PISSN: 00219193     EISSN: 10985530     Source Type: Journal    
DOI: 10.1128/JB.06238-11     Document Type: Article
Times cited : (60)

References (54)
  • 1
    • 65549155326 scopus 로고    scopus 로고
    • Similar and divergent effects of ppGpp and DksA deficiencies on transcription in Escherichia coli
    • Aberg A, Fernandez-Vazquez J, Cabrer-Panes JD, Sanchez A, Balsalobre C. 2009. Similar and divergent effects of ppGpp and DksA deficiencies on transcription in Escherichia coli. J. Bacteriol. 191:3226-3236.
    • (2009) J. Bacteriol. , vol.191 , pp. 3226-3236
    • Aberg, A.1    Fernandez-Vazquez, J.2    Cabrer-Panes, J.D.3    Sanchez, A.4    Balsalobre, C.5
  • 2
    • 39849100395 scopus 로고    scopus 로고
    • Regulation of the fimB promoter: a case of differential regulation by ppGpp and DksA in vivo
    • Aberg A, Shingler V, Balsalobre C. 2008. Regulation of the fimB promoter: a case of differential regulation by ppGpp and DksA in vivo. Mol. Microbiol. 67:1223-1241.
    • (2008) Mol. Microbiol. , vol.67 , pp. 1223-1241
    • Aberg, A.1    Shingler, V.2    Balsalobre, C.3
  • 3
    • 2042475439 scopus 로고    scopus 로고
    • Structural basis for transcription regulation by alarmone ppGpp
    • Artsimovitch I, et al. 2004. Structural basis for transcription regulation by alarmone ppGpp. Cell 117:299-310.
    • (2004) Cell , vol.117 , pp. 299-310
    • Artsimovitch, I.1
  • 4
    • 77954371207 scopus 로고    scopus 로고
    • RNA polymerase mutations that facilitate replication progression in the rep uvrD recF mutant lacking two accessory replicative helicases
    • Baharoglu Z, Lestini R, Duigou S, Michel B. 2010. RNA polymerase mutations that facilitate replication progression in the rep uvrD recF mutant lacking two accessory replicative helicases. Mol. Microbiol. 77:324-336.
    • (2010) Mol. Microbiol. , vol.77 , pp. 324-336
    • Baharoglu, Z.1    Lestini, R.2    Duigou, S.3    Michel, B.4
  • 5
    • 0035951301 scopus 로고    scopus 로고
    • Mechanism of regulation of transcription initiation by ppGpp. II. Models for positive control based on properties of RNAP mutants and competition for RNAP
    • Barker MM, Gaal T, Gourse RL. 2001. Mechanism of regulation of transcription initiation by ppGpp. II. Models for positive control based on properties of RNAP mutants and competition for RNAP. J. Mol. Biol. 305:689-702.
    • (2001) J. Mol. Biol. , vol.305 , pp. 689-702
    • Barker, M.M.1    Gaal, T.2    Gourse, R.L.3
  • 6
    • 59249092262 scopus 로고    scopus 로고
    • TraR, a homolog of a RNAP secondary channel interactor, modulates transcription
    • Blankschien MD, et al. 2009. TraR, a homolog of a RNAP secondary channel interactor, modulates transcription. PLoS Genet. 5:e1000345.
    • (2009) PLoS Genet. , vol.5
    • Blankschien, M.D.1
  • 7
    • 14844329013 scopus 로고    scopus 로고
    • Bacterial transcription elongation factors: new insights into molecular mechanism of action
    • Borukhov S, Lee J, Laptenko O. 2005. Bacterial transcription elongation factors: new insights into molecular mechanism of action. Mol. Microbiol. 55:1315-1324.
    • (2005) Mol. Microbiol. , vol.55 , pp. 1315-1324
    • Borukhov, S.1    Lee, J.2    Laptenko, O.3
  • 8
    • 0036331056 scopus 로고    scopus 로고
    • DksA affects ppGpp induction of RpoS at a translational level
    • Brown L, Gentry D, Elliott T, Cashel M. 2002. DksA affects ppGpp induction of RpoS at a translational level. J. Bacteriol. 184:4455-4465.
    • (2002) J. Bacteriol. , vol.184 , pp. 4455-4465
    • Brown, L.1    Gentry, D.2    Elliott, T.3    Cashel, M.4
  • 10
    • 0345531143 scopus 로고    scopus 로고
    • A DNA translocation motif in the bacterial transcription-repair coupling factor, Mfd
    • Chambers AL, Smith AJ, Savery NJ. 2003. A DNA translocation motif in the bacterial transcription-repair coupling factor, Mfd. Nucleic Acids Res. 31:6409-6418.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 6409-6418
    • Chambers, A.L.1    Smith, A.J.2    Savery, N.J.3
  • 11
    • 79957486892 scopus 로고    scopus 로고
    • The dksA promoter is negatively feedback regulated by DksA and ppGpp
    • Chandrangsu P, Lemke JJ, Gourse RL. 2011. The dksA promoter is negatively feedback regulated by DksA and ppGpp. Mol. Microbiol. 80:1337-1348.
    • (2011) Mol. Microbiol. , vol.80 , pp. 1337-1348
    • Chandrangsu, P.1    Lemke, J.J.2    Gourse, R.L.3
  • 12
    • 0034629139 scopus 로고    scopus 로고
    • The study of guanosine 5'-diphosphate 3'-diphosphatemediated transcription regulation in vitro using a coupled transcriptiontranslation system
    • Choy HE. 2000. The study of guanosine 5'-diphosphate 3'-diphosphatemediated transcription regulation in vitro using a coupled transcriptiontranslation system. J. Biol. Chem. 275:6783-6789.
    • (2000) J. Biol. Chem. , vol.275 , pp. 6783-6789
    • Choy, H.E.1
  • 13
    • 33746314786 scopus 로고    scopus 로고
    • Conformational toggle triggers a modulator of RNA polymerase activity
    • Deighan P, Hochschild A. 2006. Conformational toggle triggers a modulator of RNA polymerase activity. Trends Biochem. Sci. 31:424-426.
    • (2006) Trends Biochem. Sci. , vol.31 , pp. 424-426
    • Deighan, P.1    Hochschild, A.2
  • 14
    • 79958838355 scopus 로고    scopus 로고
    • Circuitry linking the Csr and stringent response global regulatory systems
    • Edwards AN, et al. 2011. Circuitry linking the Csr and stringent response global regulatory systems. Mol. Microbiol. 80:1561-1580.
    • (2011) Mol. Microbiol. , vol.80 , pp. 1561-1580
    • Edwards, A.N.1
  • 15
    • 68249138705 scopus 로고    scopus 로고
    • Increased RNA polymerase availability directs resources towards growth at the expense of maintenance
    • Gummesson B, et al. 2009. Increased RNA polymerase availability directs resources towards growth at the expense of maintenance. EMBO J. 28:2209-2219.
    • (2009) EMBO J. , vol.28 , pp. 2209-2219
    • Gummesson, B.1
  • 16
    • 47749126180 scopus 로고    scopus 로고
    • Synthetic growth phenotypes of Escherichia coli lacking ppGpp and transketolase A (tktA) are due to ppGpp-mediated transcriptional regulation of tktB
    • Harinarayanan R, Murphy H, Cashel M. 2008. Synthetic growth phenotypes of Escherichia coli lacking ppGpp and transketolase A (tktA) are due to ppGpp-mediated transcriptional regulation of tktB. Mol. Microbiol. 69:882-894.
    • (2008) Mol. Microbiol. , vol.69 , pp. 882-894
    • Harinarayanan, R.1    Murphy, H.2    Cashel, M.3
  • 17
    • 0029165036 scopus 로고
    • Changes in conserved region 3 of Escherichia coli sigma 70 mediate ppGpp-dependent functions in vivo
    • Hernandez VJ, Cashel M. 1995. Changes in conserved region 3 of Escherichia coli sigma 70 mediate ppGpp-dependent functions in vivo. J. Mol. Biol. 252:536-549.
    • (1995) J. Mol. Biol. , vol.252 , pp. 536-549
    • Hernandez, V.J.1    Cashel, M.2
  • 18
    • 67149144183 scopus 로고    scopus 로고
    • Molecular mechanism of transcriptional cascade initiated by the EvgS/EvgA system in Escherichia coli K-12
    • Itou J, Eguchi Y, Utsumi R. 2009. Molecular mechanism of transcriptional cascade initiated by the EvgS/EvgA system in Escherichia coli K-12. Biosci. Biotechnol. Biochem. 73:870-878.
    • (2009) Biosci. Biotechnol. Biochem. , vol.73 , pp. 870-878
    • Itou, J.1    Eguchi, Y.2    Utsumi, R.3
  • 19
    • 0030950638 scopus 로고    scopus 로고
    • RNA polymerase switches between inactivated and activated states by translocating back and forth along the DNA and the RNA
    • Komissarova N, Kashlev M. 1997. RNA polymerase switches between inactivated and activated states by translocating back and forth along the DNA and the RNA. J. Biol. Chem. 272:15329-15338.
    • (1997) J. Biol. Chem. , vol.272 , pp. 15329-15338
    • Komissarova, N.1    Kashlev, M.2
  • 20
    • 0031059249 scopus 로고    scopus 로고
    • Transcriptional arrest: Escherichia coli RNA polymerase translocates backward, leaving the 3' end of the RNA intact and extruded
    • Komissarova N, Kashlev M. 1997. Transcriptional arrest: Escherichia coli RNA polymerase translocates backward, leaving the 3' end of the RNA intact and extruded. Proc. Natl. Acad. Sci. U. S. A. 94:1755-1760.
    • (1997) Proc. Natl. Acad. Sci. U. S. A. , vol.94 , pp. 1755-1760
    • Komissarova, N.1    Kashlev, M.2
  • 21
    • 30344459408 scopus 로고    scopus 로고
    • Crystal structure of Thermus aquaticus Gfh1, a Gre-factor paralog that inhibits rather than stimulates transcript cleavage
    • Lamour V, Hogan BP, Erie DA, Darst SA. 2006. Crystal structure of Thermus aquaticus Gfh1, a Gre-factor paralog that inhibits rather than stimulates transcript cleavage. J. Mol. Biol. 356:179-188.
    • (2006) J. Mol. Biol. , vol.356 , pp. 179-188
    • Lamour, V.1    Hogan, B.P.2    Erie, D.A.3    Darst, S.A.4
  • 22
    • 0346243938 scopus 로고    scopus 로고
    • Transcript cleavage factors GreA and GreB act as transient catalytic components of RNA polymerase
    • Laptenko O, Lee J, Lomakin I, Borukhov S. 2003. Transcript cleavage factors GreA and GreB act as transient catalytic components of RNA polymerase. EMBO J. 22:6322-6334.
    • (2003) EMBO J. , vol.22 , pp. 6322-6334
    • Laptenko, O.1    Lee, J.2    Lomakin, I.3    Borukhov, S.4
  • 23
    • 73349100378 scopus 로고    scopus 로고
    • Transcription from bacteriophage lambda pR promoter is regulated independently and antagonistically by DksA and ppGpp
    • Lyzen R, Kochanowska M, Wegrzyn G, Szalewska-Palasz A. 2009. Transcription from bacteriophage lambda pR promoter is regulated independently and antagonistically by DksA and ppGpp. Nucleic Acids Res. 37:6655-6664.
    • (2009) Nucleic Acids Res. , vol.37 , pp. 6655-6664
    • Lyzen, R.1    Kochanowska, M.2    Wegrzyn, G.3    Szalewska-Palasz, A.4
  • 24
  • 25
    • 21244457233 scopus 로고    scopus 로고
    • RecN protein and transcription factor DksA combine to promote faithful recombinational repair of DNA double-strand breaks
    • Meddows TR, Savory AP, Grove JI, Moore T, Lloyd RG. 2005. RecN protein and transcription factor DksA combine to promote faithful recombinational repair of DNA double-strand breaks. Mol. Microbiol. 57:97-110.
    • (2005) Mol. Microbiol. , vol.57 , pp. 97-110
    • Meddows, T.R.1    Savory, A.P.2    Grove, J.I.3    Moore, T.4    Lloyd, R.G.5
  • 26
    • 0003785155 scopus 로고
    • Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
    • Miller JH. 1972. Experiments in molecular genetics. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
    • (1972) Experiments in molecular genetics
    • Miller, J.H.1
  • 27
    • 0347536251 scopus 로고    scopus 로고
    • Isolation of RNA polymerase suppressors of a (p)ppGpp deficiency
    • Murphy H, Cashel M. 2003. Isolation of RNA polymerase suppressors of a (p)ppGpp deficiency. Methods Enzymol. 371:596-601.
    • (2003) Methods Enzymol. , vol.371 , pp. 596-601
    • Murphy, H.1    Cashel, M.2
  • 29
    • 4043069926 scopus 로고    scopus 로고
    • DksA: a critical component of the transcription initiation machinery that potentiates the regulation of rRNA promoters by ppGpp and the initiating NTP
    • Paul BJ, et al. 2004. DksA: a critical component of the transcription initiation machinery that potentiates the regulation of rRNA promoters by ppGpp and the initiating NTP. Cell 118:311-322.
    • (2004) Cell , vol.118 , pp. 311-322
    • Paul, B.J.1
  • 30
    • 20344363655 scopus 로고    scopus 로고
    • DksA potentiates direct activation of amino acid promoters by ppGpp
    • Paul BJ, Berkmen MB, Gourse RL. 2005. DksA potentiates direct activation of amino acid promoters by ppGpp. Proc. Natl. Acad. Sci. U. S. A. 102:7823-7828.
    • (2005) Proc. Natl. Acad. Sci. U. S. A. , vol.102 , pp. 7823-7828
    • Paul, B.J.1    Berkmen, M.B.2    Gourse, R.L.3
  • 31
    • 4043108470 scopus 로고    scopus 로고
    • Regulation through the secondary channel-structural framework for ppGpp-DksA synergism during transcription
    • Perederina A, et al. 2004. Regulation through the secondary channel-structural framework for ppGpp-DksA synergism during transcription. Cell 118:297-309.
    • (2004) Cell , vol.118 , pp. 297-309
    • Perederina, A.1
  • 33
    • 77950489765 scopus 로고    scopus 로고
    • Imprecise transcription termination within Escherichia coli greA leader gives rise to an array of short transcripts, GraL
    • Potrykus K, Murphy H, Chen X, Epstein JA, Cashel M. 2010. Imprecise transcription termination within Escherichia coli greA leader gives rise to an array of short transcripts, GraL. Nucleic Acids Res. 38:1636-1651.
    • (2010) Nucleic Acids Res. , vol.38 , pp. 1636-1651
    • Potrykus, K.1    Murphy, H.2    Chen, X.3    Epstein, J.A.4    Cashel, M.5
  • 35
    • 33744962968 scopus 로고    scopus 로고
    • Antagonistic regulation of Escherichia coli ribosomal RNA rrnB P1 promoter activity by GreA and DksA
    • Potrykus K, et al. 2006. Antagonistic regulation of Escherichia coli ribosomal RNA rrnB P1 promoter activity by GreA and DksA. J. Biol. Chem. 281:15238-15248.
    • (2006) J. Biol. Chem. , vol.281 , pp. 15238-15248
    • Potrykus, K.1
  • 37
    • 38949193280 scopus 로고    scopus 로고
    • Role of the multidrug resistance regulator MarA in global regulation of the hdeAB acid resistance operon in Escherichia coli
    • Ruiz C, McMurry LM, Levy SB. 2008. Role of the multidrug resistance regulator MarA in global regulation of the hdeAB acid resistance operon in Escherichia coli. J. Bacteriol. 190:1290-1297.
    • (2008) J. Bacteriol. , vol.190 , pp. 1290-1297
    • Ruiz, C.1    McMurry, L.M.2    Levy, S.B.3
  • 38
    • 33846604629 scopus 로고    scopus 로고
    • 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, et al. 2007. Effects of DksA, GreA, and GreB on transcription initiation: insights into the mechanisms of factors that bind in the secondary channel of RNA polymerase. J. Mol. Biol. 366:1243-1257.
    • (2007) J. Mol. Biol. , vol.366 , pp. 1243-1257
    • Rutherford, S.T.1
  • 39
  • 40
    • 0023772262 scopus 로고
    • Basal ppGpp level adjustment shown by new spoT mutants affect steady state growth rates and rrnA ribosomal promoter regulation in Escherichia coli
    • Sarubbi E, Rudd KE, Cashel M. 1988. Basal ppGpp level adjustment shown by new spoT mutants affect steady state growth rates and rrnA ribosomal promoter regulation in Escherichia coli. Mol. Gen. Genet. 213:214-222.
    • (1988) Mol. Gen. Genet. , vol.213 , pp. 214-222
    • Sarubbi, E.1    Rudd, K.E.2    Cashel, M.3
  • 41
    • 34347332162 scopus 로고    scopus 로고
    • The molecular mechanism of transcription-coupled DNA repair
    • Savery NJ. 2007. The molecular mechanism of transcription-coupled DNA repair. Trends Microbiol. 15:326-333.
    • (2007) Trends Microbiol. , vol.15 , pp. 326-333
    • Savery, N.J.1
  • 42
    • 62449255253 scopus 로고    scopus 로고
    • A 750 bp sensory integration region directs global control of the Escherichia coli GadE acid resistance regulator
    • Sayed AK, Foster JW. 2009. A 750 bp sensory integration region directs global control of the Escherichia coli GadE acid resistance regulator. Mol. Microbiol. 71:1435-1450.
    • (2009) Mol. Microbiol. , vol.71 , pp. 1435-1450
    • Sayed, A.K.1    Foster, J.W.2
  • 43
    • 0023255472 scopus 로고
    • Improved single and multicopy lac-based cloning vectors for protein and operon fusions
    • Simons RW, Houman F, Kleckner N. 1987. Improved single and multicopy lac-based cloning vectors for protein and operon fusions. Gene 53:85-96.
    • (1987) Gene , vol.53 , pp. 85-96
    • Simons, R.W.1    Houman, F.2    Kleckner, N.3
  • 44
    • 0026572030 scopus 로고
    • Simultaneous gain and loss of functions caused by a single amino acid substitution in the beta subunit of Escherichia coli RNA polymerase: suppression of nusA and rho mutations and conditional lethality
    • Sparkowski J, Das A. 1992. Simultaneous gain and loss of functions caused by a single amino acid substitution in the beta subunit of Escherichia coli RNA polymerase: suppression of nusA and rho mutations and conditional lethality. Genetics 130:411-428.
    • (1992) Genetics , vol.130 , pp. 411-428
    • Sparkowski, J.1    Das, A.2
  • 45
    • 0025049862 scopus 로고
    • The nucleotide sequence of greA, a suppressor gene that restores growth of an Escherichia coli RNA polymerase mutant at high temperature
    • Sparkowski J, Das A. 1990. The nucleotide sequence of greA, a suppressor gene that restores growth of an Escherichia coli RNA polymerase mutant at high temperature. Nucleic Acids Res. 18:6443.
    • (1990) Nucleic Acids Res. , vol.18 , pp. 6443
    • Sparkowski, J.1    Das, A.2
  • 46
    • 37449029179 scopus 로고    scopus 로고
    • Analysis of promoter targets for Escherichia coli transcription elongation factor GreA in vivo and in vitro
    • Stepanova E, et al. 2007. Analysis of promoter targets for Escherichia coli transcription elongation factor GreA in vivo and in vitro. J. Bacteriol. 189:8772-8785.
    • (2007) J. Bacteriol. , vol.189 , pp. 8772-8785
    • Stepanova, E.1
  • 48
    • 34547095521 scopus 로고    scopus 로고
    • Properties of RNA polymerase bypass mutants: implications for the role of ppGpp and its co-factor DksA in controlling transcription dependent on sigma54
    • Szalewska-Palasz A, et al. 2007. Properties of RNA polymerase bypass mutants: implications for the role of ppGpp and its co-factor DksA in controlling transcription dependent on sigma54. J. Biol. Chem. 282:18046-18056.
    • (2007) J. Biol. Chem. , vol.282 , pp. 18046-18056
    • Szalewska-Palasz, A.1
  • 49
    • 77952527102 scopus 로고    scopus 로고
    • The transcription factor DksA prevents conflicts between DNA replication and transcription machinery
    • Tehranchi AK, et al. 2010. The transcription factor DksA prevents conflicts between DNA replication and transcription machinery. Cell 141:595-605.
    • (2010) Cell , vol.141 , pp. 595-605
    • Tehranchi, A.K.1
  • 50
    • 22544464455 scopus 로고    scopus 로고
    • RNA polymerase modulators and DNA repair activities resolve conflicts between DNA replication and transcription
    • Trautinger BW, Jaktaji RP, Rusakova E, Lloyd RG. 2005. RNA polymerase modulators and DNA repair activities resolve conflicts between DNA replication and transcription. Mol. Cell 19:247-258.
    • (2005) Mol. Cell , vol.19 , pp. 247-258
    • Trautinger, B.W.1    Jaktaji, R.P.2    Rusakova, E.3    Lloyd, R.G.4
  • 51
    • 0017106681 scopus 로고
    • A rapid test for the relA mutation in E. coli
    • Uzan M, Danchin A. 1976. A rapid test for the relA mutation in E. coli. Biochem. Biophys. Res. Commun. 69:751-758.
    • (1976) Biochem. Biophys. Res. Commun. , vol.69 , pp. 751-758
    • Uzan, M.1    Danchin, A.2
  • 52
    • 40049090539 scopus 로고    scopus 로고
    • 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, et al. 2008. 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. J. Mol. Biol. 377:551-564.
    • (2008) J. Mol. Biol. , vol.377 , pp. 551-564
    • Vrentas, C.E.1
  • 53
    • 0025992789 scopus 로고
    • Residual guanosine 3',5'-bispyrophosphate synthetic activity of relA null mutants can be eliminated by spoT null mutations
    • Xiao H, et al. 1991. Residual guanosine 3',5'-bispyrophosphate synthetic activity of relA null mutants can be eliminated by spoT null mutations. J. Biol. Chem. 266:5980-5990.
    • (1991) J. Biol. Chem. , vol.266 , pp. 5980-5990
    • Xiao, H.1
  • 54
    • 0032539903 scopus 로고    scopus 로고
    • The rpoB mutants destabilizing initiation complexes at stringently controlled promoters behave like "stringent" RNA polymerases in Escherichia coli
    • Zhou YN, Jin DJ. 1998. The rpoB mutants destabilizing initiation complexes at stringently controlled promoters behave like "stringent" RNA polymerases in Escherichia coli. Proc. Natl. Acad. Sci. U. S. A. 95:2908-2913.
    • (1998) Proc. Natl. Acad. Sci. U. S. A. , vol.95 , pp. 2908-2913
    • Zhou, Y.N.1    Jin, D.J.2


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