메뉴 건너뛰기




Volumn 109, Issue 1, 2012, Pages 155-160

Reconciling molecular regulatory mechanisms with noise patterns of bacterial metabolic promoters in induced and repressed states

Author keywords

B. subtilis; Central carbon metabolism; Gene expression control; Promoter activity; Stochastic gene expression

Indexed keywords

GLUCOSE; GREEN FLUORESCENT PROTEIN; MALIC ACID;

EID: 84856021767     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1110541108     Document Type: Article
Times cited : (60)

References (40)
  • 1
    • 77956520011 scopus 로고    scopus 로고
    • Functional roles for noise in genetic circuits
    • Eldar A, Elowitz MB (2010) Functional roles for noise in genetic circuits. Nature 467:167 173.
    • (2010) Nature , vol.467 , pp. 167173
    • Eldar, A.1    Elowitz, M.B.2
  • 2
    • 34047262163 scopus 로고    scopus 로고
    • Stochastic gene expression: from single molecules to the proteome
    • DOI 10.1016/j.gde.2007.02.007, PII S0959437X07000330, Chromosomes and Expression Mechanisms
    • Kaufmann BB, Van Oudenaarden A (2007) Stochastic gene expression: from single molecules to the proteome. Curr Opin Genet Dev 17:107-112. (Pubitemid 46551719)
    • (2007) Current Opinion in Genetics and Development , vol.17 , Issue.2 , pp. 107-112
    • Kaufmann, B.B.1    Van Oudenaarden, A.2
  • 3
    • 77953223755 scopus 로고    scopus 로고
    • PBaSysBioII: An integrative plasmid generating gfp transcriptional fusions for high-throughput analysis of gene expression in Bacillus subtilis
    • Botella E, et al. (2010) pBaSysBioII: An integrative plasmid generating gfp transcriptional fusions for high-throughput analysis of gene expression in Bacillus subtilis. Microbiology 156:1600-1608.
    • (2010) Microbiology , vol.156 , pp. 1600-1608
    • Botella, E.1
  • 4
    • 33645027986 scopus 로고    scopus 로고
    • Stochastic protein expression in individual cells at the single molecule level
    • Cai L, Friedman N, Xie XS (2006) Stochastic protein expression in individual cells at the single molecule level. Nature 440:358-362.
    • (2006) Nature , vol.440 , pp. 358-362
    • Cai, L.1    Friedman, N.2    Xie, X.S.3
  • 5
    • 33750247101 scopus 로고    scopus 로고
    • Linking stochastic dynamics to population distribution: An analytical framework of gene expression
    • Friedman N, Cai L, Xie XS (2006) Linking stochastic dynamics to population distribution: an analytical framework of gene expression. Phys Rev Lett 97:168302.
    • (2006) Phys Rev Lett , vol.97 , pp. 168302
    • Friedman, N.1    Cai, L.2    Xie, X.S.3
  • 6
    • 33748994704 scopus 로고    scopus 로고
    • Stochastic mRNA synthesis in mammalian cells
    • Raj A, et al. (2006) Stochastic mRNA synthesis in mammalian cells. PLoS Biol 4:e309.
    • (2006) PLoS Biol , vol.4
    • Raj, A.1
  • 7
    • 42949131308 scopus 로고    scopus 로고
    • Selection to minimise noise in living systems and its implications for the evolution of gene expression
    • Lehner B (2008) Selection to minimise noise in living systems and its implications for the evolution of gene expression. Mol Syst Biol 4:1-5.
    • (2008) Mol Syst Biol , vol.4 , pp. 1-5
    • Lehner, B.1
  • 8
    • 33745220278 scopus 로고    scopus 로고
    • Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise
    • Newman JR, et al. (2006) Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise. Nature 441:840-846.
    • (2006) Nature , vol.441 , pp. 840-846
    • Newman, J.R.1
  • 9
    • 79955613183 scopus 로고    scopus 로고
    • Impact of gene expression noise on organismal fitness and the efficacy of natural selection
    • Wang Z, Zhang J (2011) Impact of gene expression noise on organismal fitness and the efficacy of natural selection. Proc Natl Acad Sci USA 108:E67-E76.
    • (2011) Proc Natl Acad Sci USA , vol.108
    • Wang, Z.1    Zhang, J.2
  • 10
    • 41749107942 scopus 로고    scopus 로고
    • Stochasticity and cell fate
    • DOI 10.1126/science.1147888
    • Losick R, Desplan C (2008) Stochasticity and cell fate. Science 320:65-68. (Pubitemid 351490752)
    • (2008) Science , vol.320 , Issue.5872 , pp. 65-68
    • Losick, R.1    Desplan, C.2
  • 11
    • 69249106061 scopus 로고    scopus 로고
    • Positive selection for elevated gene expression noise in yeast
    • Zhang Z, Qian W, Zhang J (2009) Positive selection for elevated gene expression noise in yeast. Mol Syst Biol 5:299.
    • (2009) Mol Syst Biol , vol.5 , pp. 299
    • Zhang, Z.1    Qian, W.2    Zhang, J.3
  • 12
    • 25444489027 scopus 로고    scopus 로고
    • Ecology: Phenotypic diversity, population growth, and information in fluctuating environments
    • DOI 10.1126/science.1114383
    • Kussell E, Leibler S (2005) Phenotypic diversity, population growth, and information in fluctuating environments. Science 309:2075-2078. (Pubitemid 41362330)
    • (2005) Science , vol.309 , Issue.5743 , pp. 2075-2078
    • Kussell, E.1    Leibler, S.2
  • 13
    • 75849116320 scopus 로고    scopus 로고
    • Deciding fate in adverse times: Sporulation and competence in Bacillus subtilis
    • Schultz D, et al. (2009) Deciding fate in adverse times: sporulation and competence in Bacillus subtilis. Proc Natl Acad Sci USA 106:21027-21034.
    • (2009) Proc Natl Acad Sci USA , vol.106 , pp. 21027-21034
    • Schultz, D.1
  • 14
    • 79955006805 scopus 로고    scopus 로고
    • Exploring transcription regulation through cell-to-cell variability
    • Rinott R, Jaimovich A, Friedman N (2011) Exploring transcription regulation through cell-to-cell variability. Proc Natl Acad Sci USA 108:6329-6334.
    • (2011) Proc Natl Acad Sci USA , vol.108 , pp. 6329-6334
    • Rinott, R.1    Jaimovich, A.2    Friedman, N.3
  • 15
    • 0034640272 scopus 로고    scopus 로고
    • Two glyceraldehyde-3-phosphate dehydrogenases with opposite physiological roles in a nonphotosynthetic bacterium
    • Fillinger S, et al. (2000) Two glyceraldehyde-3-phosphate dehydrogenases with opposite physiological roles in a nonphotosynthetic bacterium. J Biol Chem 275:14031-14073.
    • (2000) J Biol Chem , vol.275 , pp. 14031-14073
    • Fillinger, S.1
  • 16
    • 14844295003 scopus 로고    scopus 로고
    • CcpN (YqzB), a novel regulator for CcpA-independent catabolite repression of Bacillus subtilis gluconeogenic genes
    • DOI 10.1111/j.1365-2958.2005.04473.x
    • Servant P, Le Coq D, Aymerich S (2005) CcpN (YqzB), a novel regulator for CcpA-independent catabolite repression of Bacillus subtilisgluconeogenic genes. Mol Microbiol 55:1435-1451. (Pubitemid 40342071)
    • (2005) Molecular Microbiology , vol.55 , Issue.5 , pp. 1435-1451
    • Servant, P.1    Le, C.D.2    Aymerich, S.3
  • 17
    • 0037344870 scopus 로고    scopus 로고
    • Regulation of the central glycolytic genes in Bacillus subtilis: Binding of the repressor CggR to its single DNA target sequence is modulated by fructose-1,6-bisphosphate
    • DOI 10.1046/j.1365-2958.2003.03404.x
    • Doan T, Aymerich S (2003) Regulation of the central glycolytic genes in Bacillus subtilis: Binding of the repressor CggR to its single DNA target sequence is modulated by fructose-1,6-bisphosphate. Mol Microbiol 47:1709-1721. (Pubitemid 36363350)
    • (2003) Molecular Microbiology , vol.47 , Issue.6 , pp. 1709-1721
    • Doan, T.1    Aymerich, S.2
  • 18
    • 77957242555 scopus 로고    scopus 로고
    • Physical basis of the inducer-dependent cooperativity of the Central glycolytic genes Repressor/DNA complex
    • Chaix D, et al. (2010) Physical basis of the inducer-dependent cooperativity of the Central glycolytic genes Repressor/DNA complex. Nucleic Acids Res 38:5944-5957.
    • (2010) Nucleic Acids Res , vol.38 , pp. 5944-5957
    • Chaix, D.1
  • 19
    • 51549110350 scopus 로고    scopus 로고
    • CcpN controls central carbon fluxes in Bacillus subtilis
    • Tännler S, et al. (2008) CcpN controls central carbon fluxes in Bacillus subtilis. J Bacteriol 190:6178-6187.
    • (2008) J Bacteriol , vol.190 , pp. 6178-6187
    • Tännler, S.1
  • 20
    • 44649111763 scopus 로고    scopus 로고
    • Identification of ligands affecting the activity of the transcriptional repressor CcpN from Bacillus subtilis
    • Licht A, Golbik R, Brantl S (2008) Identification of ligands affecting the activity of the transcriptional repressor CcpN from Bacillus subtilis. J Mol Biol 380:17-30.
    • (2008) J Mol Biol , vol.380 , pp. 17-30
    • Licht, A.1    Golbik, R.2    Brantl, S.3
  • 21
    • 71049188000 scopus 로고    scopus 로고
    • The transcriptional repressor CcpN from Bacillus subtilis uses different repression mechanisms at different promoters
    • Licht A, Brantl S (2009) The transcriptional repressor CcpN from Bacillus subtilis uses different repression mechanisms at different promoters. J Biol Chem 284: 30032-30038.
    • (2009) J Biol Chem , vol.284 , pp. 30032-30038
    • Licht, A.1    Brantl, S.2
  • 22
    • 54249083606 scopus 로고    scopus 로고
    • A stochastic single-molecule event triggers phenotype switching of a bacterial cell
    • Choi PJ, et al. (2008) A stochastic single-molecule event triggers phenotype switching of a bacterial cell. Science 322:442-446.
    • (2008) Science , vol.322 , pp. 442-446
    • Choi, P.J.1
  • 23
    • 34249932435 scopus 로고    scopus 로고
    • Probing transcription factor dynamics at the single-molecule level in a living cell
    • DOI 10.1126/science.1141967
    • Elf J, Li GW, Xie XS (2007) Probing transcription factor dynamics at the single-molecule level in a living cell. Science 316:1191-1194. (Pubitemid 46877481)
    • (2007) Science , vol.316 , Issue.5828 , pp. 1191-1194
    • Elf, J.1    Li, G.-W.2    Xie, X.S.3
  • 24
    • 77955102352 scopus 로고    scopus 로고
    • Quantifying E. coli proteome and transcriptome with single-molecule sensitivity in single cells
    • Taniguchi Y, et al. (2010) Quantifying E. coli proteome and transcriptome with single-molecule sensitivity in single cells. Science 329:533-538.
    • (2010) Science , vol.329 , pp. 533-538
    • Taniguchi, Y.1
  • 25
    • 44049105523 scopus 로고    scopus 로고
    • Mapping the number of molecules and brightness in the laser scanning microscope
    • Digman MA, et al. (2008) Mapping the number of molecules and brightness in the laser scanning microscope. Biophys J 94:2320-2332.
    • (2008) Biophys J , vol.94 , pp. 2320-2332
    • Digman, M.A.1
  • 26
    • 60549110664 scopus 로고    scopus 로고
    • Stoichiometry of molecular complexes at adhesions in living cells
    • Digman MA, et al. (2009) Stoichiometry of molecular complexes at adhesions in living cells. Proc Natl Acad Sci USA 106:2170-2175.
    • (2009) Proc Natl Acad Sci USA , vol.106 , pp. 2170-2175
    • Digman, M.A.1
  • 27
    • 80054055622 scopus 로고    scopus 로고
    • Absolute quantification of gene expression in individual bacterial cells using two-photon fluctuation microscopy
    • Ferguson ML, et al. (2011) Absolute quantification of gene expression in individual bacterial cells using two-photon fluctuation microscopy. Anal Biochem 419:250-259.
    • (2011) Anal Biochem , vol.419 , pp. 250-259
    • Ferguson, M.L.1
  • 28
    • 0029973636 scopus 로고    scopus 로고
    • FACS-optimized mutants of the green fluorescent protein (GFP)
    • DOI 10.1016/0378-1119(95)00685-0
    • Cormack BP, Valdivia RH, Falkow S (1996) FACS-optimized mutants of the green fluorescent protein (GFP). Gene 173:33-38. (Pubitemid 26239677)
    • (1996) Gene , vol.173 , Issue.1 , pp. 33-38
    • Cormack, B.P.1    Valdivia, R.H.2    Falkow, S.3
  • 29
    • 70449514562 scopus 로고    scopus 로고
    • Hybrid stochastic simplifications for multiscale gene networks
    • Crudu A, Debussche A, Radulescu O (2009) Hybrid stochastic simplifications for multiscale gene networks. BMC Syst Biol 3:1-25.
    • (2009) BMC Syst Biol , vol.3 , pp. 1-25
    • Crudu, A.1    Debussche, A.2    Radulescu, O.3
  • 31
    • 0035896577 scopus 로고    scopus 로고
    • The effect of transcription and translation initiation frequencies on the stochastic fluctuations in prokaryotic gene expression
    • Kierzek AM, Zaim J, Zielenkiewicz P (2001) The effect of transcription and translation initiation frequencies on the stochastic fluctuations in prokaryotic gene expression. J Biol Chem 276:8165-8172.
    • (2001) J Biol Chem , vol.276 , pp. 8165-8172
    • Kierzek, A.M.1    Zaim, J.2    Zielenkiewicz, P.3
  • 32
    • 61849185339 scopus 로고    scopus 로고
    • Robust simplifications of multiscale biochemical networks
    • Radulescu O, et al. (2008) Robust simplifications of multiscale biochemical networks. BMC Syst Biol 2:1-25.
    • (2008) BMC Syst Biol , vol.2 , pp. 1-25
    • Radulescu, O.1
  • 33
    • 58149175348 scopus 로고    scopus 로고
    • Characterization of the control catabolite protein of gluconeogenic genes repressor by fluorescence cross-correlation spectroscopy and other biophysical approaches
    • Zorrilla S, et al. (2008) Characterization of the control catabolite protein of gluconeogenic genes repressor by fluorescence cross-correlation spectroscopy and other biophysical approaches. Biophys J 95:4403-4415.
    • (2008) Biophys J , vol.95 , pp. 4403-4415
    • Zorrilla, S.1
  • 34
    • 33750823998 scopus 로고    scopus 로고
    • Transcriptional Repressor CcpN from Bacillus subtilis Compensates Asymmetric Contact Distribution by Cooperative Binding
    • DOI 10.1016/j.jmb.2006.09.021, PII S0022283606012101
    • Licht A, Brantl S (2006) Transcriptional repressor CcpN from Bacillus subtilis compensates asymmetric contact distribution by cooperative binding. J Mol Biol 364:434-448. (Pubitemid 44715936)
    • (2006) Journal of Molecular Biology , vol.364 , Issue.3 , pp. 434-448
    • Licht, A.1    Brantl, S.2
  • 37
    • 33748058888 scopus 로고    scopus 로고
    • Bistability in bacteria
    • DOI 10.1111/j.1365-2958.2006.05249.x
    • Dubnau D, Losick R (2006) Bistability in bacteria. Mol Microbiol 61:564-572. (Pubitemid 44324084)
    • (2006) Molecular Microbiology , vol.61 , Issue.3 , pp. 564-572
    • Dubnau, D.1    Losick, R.2
  • 38
    • 28944434119 scopus 로고    scopus 로고
    • Real-time kinetics of gene activity in individual bacteria
    • DOI 10.1016/j.cell.2005.09.031, PII S0092867405010378
    • Golding I, et al. (2005) Real-time kinetics of gene activity in individual bacteria. Cell 123:1025-1036. (Pubitemid 41785418)
    • (2005) Cell , vol.123 , Issue.6 , pp. 1025-1036
    • Golding, I.1    Paulsson, J.2    Zawilski, S.M.3    Cox, E.C.4
  • 39
    • 0034212551 scopus 로고    scopus 로고
    • Engineering stability in gene networks by autoregulation
    • Becskei A, Serrano L (2000) Engineering stability in gene networks by autoregulation. Nature 405:590-593.
    • (2000) Nature , vol.405 , pp. 590-593
    • Becskei, A.1    Serrano, L.2
  • 40
    • 50249151891 scopus 로고    scopus 로고
    • Single-molecule analysis of CD9 dynamics and partitioning reveals multiple modes of interaction in the tetraspanin web
    • Espenel C, et al. (2008) Single-molecule analysis of CD9 dynamics and partitioning reveals multiple modes of interaction in the tetraspanin web. J Cell Biol 182:765-776.
    • (2008) J Cell Biol , vol.182 , pp. 765-776
    • Espenel, C.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.