메뉴 건너뛰기




Volumn 9, Issue 11, 2011, Pages 817-828

Non-transcriptional regulatory processes shape transcriptional network dynamics

Author keywords

[No Author keywords available]

Indexed keywords

GENE PRODUCT; SYNTHETIC DNA;

EID: 80054756690     PISSN: 17401526     EISSN: 17401534     Source Type: Journal    
DOI: 10.1038/nrmicro2667     Document Type: Review
Times cited : (42)

References (101)
  • 2
    • 55549111608 scopus 로고    scopus 로고
    • The temporal response of the Mycobacterium tuberculosis gene regulatory network during growth arrest
    • Balázsi, G., Heath, A. P., Shi, L. & Gennaro, M. L. The temporal response of the Mycobacterium tuberculosis gene regulatory network during growth arrest. Mol. Syst. Biol. 4, 225 (2008).
    • (2008) Mol. Syst. Biol. , vol.4 , pp. 225
    • Balázsi, G.1    Heath, A.P.2    Shi, L.3    Gennaro, M.L.4
  • 3
    • 0346728474 scopus 로고    scopus 로고
    • Design of gene circuits: Lessons from bacteria
    • DOI 10.1038/nrg1244
    • Wall, M. E., Hlavacek, W. S. & Savageau, M. A. Design of gene circuits: Lessons from bacteria. Nature Rev. Genet. 5, 34-42 (2004). (Pubitemid 38055334)
    • (2004) Nature Reviews Genetics , vol.5 , Issue.1 , pp. 34-42
    • Wall, M.E.1    Hlavacek, W.S.2    Savageau, M.A.3
  • 6
    • 17444387728 scopus 로고    scopus 로고
    • The Bacillus subtilis sin operon: An evolvable network motif
    • DOI 10.1534/genetics.104.031955
    • Voigt, C. A., Wolf, D. M. & Arkin, A. P. The Bacillus subtilis SIN operon: An evolvable network motif. Genetics 169, 1187-1202 (2005). (Pubitemid 40547436)
    • (2005) Genetics , vol.169 , Issue.3 , pp. 1187-1202
    • Voigt, C.A.1    Wolf, D.M.2    Arkin, A.P.3
  • 7
    • 27844551326 scopus 로고    scopus 로고
    • Dynamic properties of network motifs contribute to biological network organization
    • Prill, R. J., Iglesias, P. A. & Levchenko, A. Dynamic properties of network motifs contribute to biological network organization. PLoS Biol. 3, e343 (2005).
    • (2005) PLoS Biol. , vol.3
    • Prill, R.J.1    Iglesias, P.A.2    Levchenko, A.3
  • 8
    • 19444376022 scopus 로고    scopus 로고
    • Multiple functions of a feed-forward-loop gene circuit
    • DOI 10.1016/j.jmb.2005.04.022, PII S0022283605004298
    • Wall, M. E., Dunlop, M. J. & Hlavacek, W. S. Multiple functions of a feed-forward-loop gene circuit. J. Mol. Biol. 349, 501-514 (2005). (Pubitemid 40724561)
    • (2005) Journal of Molecular Biology , vol.349 , Issue.3 , pp. 501-514
    • Wall, M.E.1    Dunlop, M.J.2    Hlavacek, W.S.3
  • 10
    • 46849106965 scopus 로고    scopus 로고
    • Functional organisation of Escherichia coli transcriptional regulatory network
    • Martínez-Antonio, A., Janga, S. C. & Thieffry, D. Functional organisation of Escherichia coli transcriptional regulatory network. J. Mol. Biol. 381, 238-247 (2008).
    • (2008) J. Mol. Biol. , vol.381 , pp. 238-247
    • Martínez-Antonio, A.1    Janga, S.C.2    Thieffry, D.3
  • 11
    • 77649220067 scopus 로고    scopus 로고
    • Adaptable functionality of transcriptional feedback in bacterial two-component systems
    • Ray, J. C. J. & Igoshin, O. A. Adaptable functionality of transcriptional feedback in bacterial two-component systems. PLoS Comput. Biol. 6, e1000676 (2010).
    • (2010) PLoS Comput. Biol. , vol.6
    • Ray, J.C.J.1    Igoshin, O.A.2
  • 12
    • 33845458915 scopus 로고    scopus 로고
    • A positive feedback loop promotes transcription surge that jump-starts Salmonella virulence circuit
    • DOI 10.1126/science.1134930
    • Shin, D., Lee, E.-J., Huang, H. & Groisman, E. A positive feedback loop promotes transcription surge that jump-starts Salmonella virulence circuit. Science 314, 1607-1609 (2006). This study demonstrates the physiological importance of network dynamics for a virulent microorganism. (Pubitemid 44907156)
    • (2006) Science , vol.314 , Issue.5805 , pp. 1607-1609
    • Shin, D.1    Lee, E.-J.2    Huang, H.3    Groisman, E.A.4
  • 13
    • 0035578429 scopus 로고    scopus 로고
    • Design principles for elementary gene circuits: Elements, methods, and examples
    • This study demonstrates the physiological importance of network dynamics for a virulent microorganism. 13. Savageau, M. A. Design principles for elementary gene circuits: Elements, methods, and examples Chaos 11, 142-159 (2001).
    • (2001) Chaos , vol.11 , pp. 142-159
    • Savageau, M.A.1
  • 14
    • 77956289955 scopus 로고    scopus 로고
    • Classic and contemporary approaches to modeling biochemical reactions
    • Chen, W. W., Niepel, M. & Sorger, P. K. Classic and contemporary approaches to modeling biochemical reactions. Genes Dev. 24, 1861-1875 (2010).
    • (2010) Genes Dev. , vol.24 , pp. 1861-1875
    • Chen, W.W.1    Niepel, M.2    Sorger, P.K.3
  • 15
    • 0029033413 scopus 로고
    • Subunit structure of regulator proteins influences the design of gene circuitry: Analysis of perfectly coupled and completely uncoupled circuits
    • Hlavacek, W. S. & Savageau, M. A. Subunit structure of regulator proteins influences the design of gene circuitry: Analysis of perfectly coupled and completely uncoupled circuits. J. Mol. Biol. 248, 739-755 (1995).
    • (1995) J. Mol. Biol. , vol.248 , pp. 739-755
    • Hlavacek, W.S.1    Savageau, M.A.2
  • 16
    • 0024953088 scopus 로고
    • Mechanisms of cooperativity and allosteric regulation in proteins
    • Perutz, M. F. Mechanisms of cooperativity and allosteric regulation in proteins. Q. Rev. Biophys. 22, 139-237 (1989).
    • (1989) Q. Rev. Biophys. , vol.22 , pp. 139-237
    • Perutz, M.F.1
  • 18
    • 33947304756 scopus 로고    scopus 로고
    • Substrate Competition as a Source of Ultrasensitivity in the Inactivation of Wee1
    • DOI 10.1016/j.cell.2007.01.039, PII S0092867407002024
    • Kim, S. Y. & Ferrell, J. E. Substrate competition as a source of ultrasensitivity in the inactivation of Wee1. Cell 128, 1133-1145 (2007). (Pubitemid 46437260)
    • (2007) Cell , vol.128 , Issue.6 , pp. 1133-1145
    • Kim, S.Y.1    Ferrell Jr., J.E.2
  • 19
    • 50349087322 scopus 로고    scopus 로고
    • Positive receptor feedback during lineage commitment can generate ultrasensitivity to ligand and confer robustness to a bistable switch
    • Palani, S. & Sarkar, C. A. Positive receptor feedback during lineage commitment can generate ultrasensitivity to ligand and confer robustness to a bistable switch. Biophys. J. 95, 1575-1589 (2008).
    • (2008) Biophys. J. , vol.95 , pp. 1575-1589
    • Palani, S.1    Sarkar, C.A.2
  • 20
    • 66149145491 scopus 로고    scopus 로고
    • Bistable switches control memory and plasticity in cellular differentiation
    • Wang, L. et al. Bistable switches control memory and plasticity in cellular differentiation. Proc. Natl Acad. Sci. USA 106, 6638-6643 (2009).
    • (2009) Proc. Natl Acad. Sci. USA , vol.106 , pp. 6638-6643
    • Wang, L.1
  • 21
    • 0034009901 scopus 로고    scopus 로고
    • An ultrasensitive bacterial motor revealed by monitoring signaling proteins in single cells
    • DOI 10.1126/science.287.5458.1652
    • Cluzel, P., Surette, M. & Leibler, S. An ultrasensitive bacterial motor revealed by monitoring signaling proteins in single cells. Science 287, 1652-1655 (2000). (Pubitemid 30127766)
    • (2000) Science , vol.287 , Issue.5458 , pp. 1652-1655
    • Cluzel, P.1    Surette, M.2    Leibler, S.3
  • 22
    • 0020592357 scopus 로고
    • Phosphorylation of isocitrate dehydrogenase as a demonstration of enhanced sensitivity in covalent regulation
    • LaPorte, D. C. & Koshland, D. E. Phosphorylation of isocitrate dehydrogenase as a demonstration of enhanced sensitivity in covalent regulation. Nature 305, 286-290 (1983). (Pubitemid 13010921)
    • (1983) Nature , vol.305 , Issue.5932 , pp. 286-290
    • LaPorte, D.C.1    Koshland Jr., D.E.2
  • 24
    • 56949098506 scopus 로고    scopus 로고
    • Molecular titration and ultrasensitivity in regulatory networks
    • Buchler, N. E. & Louis, M. Molecular titration and ultrasensitivity in regulatory networks. J. Mol. Biol. 384, 1106-1119 (2008).
    • (2008) J. Mol. Biol. , vol.384 , pp. 1106-1119
    • Buchler, N.E.1    Louis, M.2
  • 25
    • 78349256632 scopus 로고    scopus 로고
    • The interplay of multiple feedback loops with post-translational kinetics results in bistability of mycobacterial stress response
    • Tiwari, A., Balázsi, G., Gennaro, M. L. & Igoshin, O. A. The interplay of multiple feedback loops with post-translational kinetics results in bistability of mycobacterial stress response. Phys. Biol. 7, 036005 (2010).
    • (2010) Phys. Biol. , vol.7 , pp. 036005
    • Tiwari, A.1    Balázsi, G.2    Gennaro, M.L.3    Igoshin, O.A.4
  • 26
    • 34548668642 scopus 로고    scopus 로고
    • Quantitative characteristics of gene regulation by small RNA
    • Levine, E., Zhang, Z., Kuhlman, T. & Hwa, T. Quantitative characteristics of gene regulation by small RNA. PLoS Biol. 5, e229 (2007).
    • (2007) PLoS Biol. , vol.5
    • Levine, E.1    Zhang, Z.2    Kuhlman, T.3    Hwa, T.4
  • 27
    • 55949097145 scopus 로고    scopus 로고
    • Small RNAs establish delays and temporal thresholds in gene expression
    • Legewie, S., Dienst, D., Wilde, A., Herzel, H. & Axmann, I. M. Small RNAs establish delays and temporal thresholds in gene expression. Biophys. J. 95, 3232-3238 (2008).
    • (2008) Biophys. J. , vol.95 , pp. 3232-3238
    • Legewie, S.1    Dienst, D.2    Wilde, A.3    Herzel, H.4    Axmann, I.M.5
  • 28
    • 0345359924 scopus 로고    scopus 로고
    • A positive-feedback-based bistable 'memory module' that governs a cell fate decision
    • DOI 10.1038/nature02089
    • Xiong, W. & Ferrell, J. E. A positive-feedback-based bistable 'memory module' that governs a cell fate decision. Nature 426, 460-465 (2003). (Pubitemid 37490134)
    • (2003) Nature , vol.426 , Issue.6965 , pp. 460-465
    • Xiong, W.1    Ferrell Jr., J.E.2
  • 29
    • 79251586863 scopus 로고    scopus 로고
    • Phenotypic heterogeneity in mycobacterial stringent response
    • Ghosh, S. et al. Phenotypic heterogeneity in mycobacterial stringent response. BMC Syst. Biol. 5, 18 (2011).
    • (2011) BMC Syst. Biol. , vol.5 , pp. 18
    • Ghosh, S.1
  • 30
    • 0033855774 scopus 로고    scopus 로고
    • Fluctuations and quality of control in biological cells: Zero-order ultrasensitivity reinvestigated
    • Berg, O. G., Paulsson, J. & Ehrenberg, M. Fluctuations and quality of control in biological cells: zero-order ultrasensitivity reinvestigated. Biophys. J. 79, 1228-1236 (2000).
    • (2000) Biophys. J. , vol.79 , pp. 1228-1236
    • Berg, O.G.1    Paulsson, J.2    Ehrenberg, M.3
  • 31
    • 33745197543 scopus 로고    scopus 로고
    • Signalling network with a bistable hysteretic switch controls developmental activation of the F transcription factor in Bacillus subtilis
    • Igoshin, O. A., Price, C. W. & Savageau, M. A. Signalling network with a bistable hysteretic switch controls developmental activation of the F transcription factor in Bacillus subtilis. Mol. Microbiol. 61, 165-184 (2006).
    • (2006) Mol. Microbiol. , vol.61 , pp. 165-184
    • Igoshin, O.A.1    Price, C.W.2    Savageau, M.A.3
  • 32
    • 34248683237 scopus 로고    scopus 로고
    • Distinctive Topologies of Partner-switching Signaling Networks Correlate with their Physiological Roles
    • DOI 10.1016/j.jmb.2007.04.021, PII S0022283607004871
    • Igoshin, O. A., Brody, M. S., Price, C. W. & Savageau, M. A. Distinctive topologies of partner-switching signaling networks correlate with their physiological roles. J. Mol. Biol. 369, 1333-1352 (2007). (Pubitemid 46770773)
    • (2007) Journal of Molecular Biology , vol.369 , Issue.5 , pp. 1333-1352
    • Igoshin, O.A.1    Brody, M.S.2    Price, C.W.3    Savageau, M.A.4
  • 34
    • 0007712725 scopus 로고    scopus 로고
    • Multistationarity, the basis of cell differentiation and memory. I. Structural conditions of multistationarity and other nontrivial behavior
    • Thomas, R. & Kaufman, M. Multistationarity, the basis of cell differentiation and memory. I. Structural conditions of multistationarity and other nontrivial behavior. Chaos 11, 170-179 (2001).
    • (2001) Chaos , vol.11 , pp. 170-179
    • Thomas, R.1    Kaufman, M.2
  • 35
    • 72249097352 scopus 로고    scopus 로고
    • Growth rate-dependent global effects on gene expression in bacteria
    • A re-evaluation of classic microbiology data combined with new theory reveals that the growth rate has widespread consequences for bacterial phenotypes.
    • Klumpp, S., Zhang, Z. & Hwa, T. Growth rate-dependent global effects on gene expression in bacteria. Cell 139, 1366-1375 (2009). A re-evaluation of classic microbiology data combined with new theory reveals that the growth rate has widespread consequences for bacterial phenotypes.
    • (2009) Cell , vol.139 , pp. 1366-1375
    • Klumpp, S.1    Zhang, Z.2    Hwa, T.3
  • 36
    • 70350324632 scopus 로고    scopus 로고
    • Emergent bistability by a growth-modulating positive feedback circuit
    • An elegant experimental approach that demonstrates growth-modulated bistability.
    • A re-evaluation of classic microbiology data combined with new theory reveals that the growth rate has widespread consequences for bacterial phenotypes. 36. Tan, C., Marguet, P. & You, L. Emergent bistability by a growth-modulating positive feedback circuit Nature Chem. Biol. 5, 842-848 (2009). An elegant experimental approach that demonstrates growth-modulated bistability.
    • (2009) Nature Chem. Biol. , vol.5 , pp. 842-848
    • Tan, C.1    Marguet, P.2    You, L.3
  • 37
    • 0344824655 scopus 로고    scopus 로고
    • Proteolysis in Bacterial Regulatory Circuits
    • DOI 10.1146/annurev.cellbio.19.110701.153228
    • An elegant experimental approach that demonstrates growth-modulated bistability. 37. Gottesman, S. Proteolysis in bacterial regulatory circuits Annu. Rev. Cell Dev. Biol. 19, 565-587 (2003). (Pubitemid 37487361)
    • (2003) Annual Review of Cell and Developmental Biology , vol.19 , pp. 565-587
    • Gottesman, S.1
  • 38
    • 77955452979 scopus 로고    scopus 로고
    • Regulation of phenotypic variability by a threshold-based mechanism underlies bacterial persistence
    • Rotem, E. et al. Regulation of phenotypic variability by a threshold-based mechanism underlies bacterial persistence. Proc. Natl Acad. Sci. USA 107, 12541-12546 (2010).
    • (2010) Proc. Natl Acad. Sci. USA , vol.107 , pp. 12541-12546
    • Rotem, E.1
  • 39
    • 4644343922 scopus 로고    scopus 로고
    • Bacterial persistence as a phenotypic switch
    • DOI 10.1126/science.1099390
    • Balaban, N. Q., Merrin, J., Chait, R., Kowalik, L. & Leibler, S. Bacterial persistence as a phenotypic switch. Science 305, 1622-1625 (2004). (Pubitemid 39296357)
    • (2004) Science , vol.305 , Issue.5690 , pp. 1622-1625
    • Balaban, N.Q.1    Merrin, J.2    Chait, R.3    Kowalik, L.4    Leibler, S.5
  • 40
    • 77951761289 scopus 로고    scopus 로고
    • The biological significance of substrate inhibition: A mechanism with diverse functions
    • Reed, M. C., Lieb, A. & Nijhout, F. F. The biological significance of substrate inhibition: A mechanism with diverse functions. Bioessays 32, 422-429 (2010).
    • (2010) Bioessays , vol.32 , pp. 422-429
    • Reed, M.C.1    Lieb, A.2    Nijhout, F.F.3
  • 41
    • 70349662307 scopus 로고    scopus 로고
    • Dynamic disorder-driven substrate inhibition and bistability in a simple enzymatic reaction
    • Chaudhury, S. & Igoshin, O. A. Dynamic disorder-driven substrate inhibition and bistability in a simple enzymatic reaction. J. Phys. Chem. B 113, 13421-13428 (2009).
    • (2009) J. Phys. Chem. B , vol.113 , pp. 13421-13428
    • Chaudhury, S.1    Igoshin, O.A.2
  • 42
    • 43449134999 scopus 로고    scopus 로고
    • Hysteretic and graded responses in bacterial two-component signal transduction
    • DOI 10.1111/j.1365-2958.2008.06221.x
    • Igoshin, O. A., Alves, R. & Savageau, M. A. Hysteretic and graded responses in bacterial two-component signal transduction. Mol. Microbiol. 68, 1196-1215 (2008). (Pubitemid 351670195)
    • (2008) Molecular Microbiology , vol.68 , Issue.5 , pp. 1196-1215
    • Igoshin, O.A.1    Alves, R.2    Savageau, M.A.3
  • 46
    • 56249126377 scopus 로고    scopus 로고
    • High stimulus unmasks positive feedback in an autoregulated bacterial signaling circuit
    • Miyashiro, T. & Goulian, M. High stimulus unmasks positive feedback in an autoregulated bacterial signaling circuit. Proc. Natl Acad. Sci. USA 105, 17457-17462 (2008).
    • (2008) Proc. Natl Acad. Sci. USA , vol.105 , pp. 17457-17462
    • Miyashiro, T.1    Goulian, M.2
  • 48
    • 79951615060 scopus 로고    scopus 로고
    • Regulation of acid resistance by connectors of two-component signal transduction systems in
    • Eguchi, Y., Ishii, E., Hata, K. & Utsumi, R. Regulation of acid resistance by connectors of two-component signal transduction systems in Escherichia coli. J. Bacteriol. 193, 1222-1228 (2011).
    • (2011) Escherichia coli. J. Bacteriol. , vol.193 , pp. 1222-1228
    • Eguchi, Y.1    Ishii, E.2    Hata, K.3    Utsumi, R.4
  • 49
    • 77955554335 scopus 로고    scopus 로고
    • Novel aspects of the acid response network of E. coli K-12 are revealed by a study of transcriptional dynamics
    • These authors take a detail-oriented experimental approach to evaluating the dynamics of gene-regulatory networks without losing sight of the 'big picture'.
    • Burton, N. A., Johnson, M. D., Antczak, P., Robinson, A. & Lund, P. A. Novel aspects of the acid response network of E. coli K-12 are revealed by a study of transcriptional dynamics. J. Mol. Biol. 401, 726-742 (2010). These authors take a detail-oriented experimental approach to evaluating the dynamics of gene-regulatory networks without losing sight of the 'big picture'.
    • (2010) J. Mol. Biol. , vol.401 , pp. 726-742
    • Burton, N.A.1    Johnson, M.D.2    Antczak, P.3    Robinson, A.4    Lund, P.A.5
  • 50
    • 0016145568 scopus 로고
    • Comparison of classical and autogenous systems of regulation in inducible operons
    • These authors take a detail-oriented experimental approach to evaluating the dynamics of gene-regulatory networks without losing sight of the 'big picture'. 50. Savageau, M. A. Comparison of classical and autogenous systems of regulation in inducible operons Nature 252, 546-549 (1974).
    • (1974) Nature , vol.252 , pp. 546-549
    • Savageau, M.A.1
  • 51
    • 79551663315 scopus 로고    scopus 로고
    • Discretely calibrated regulatory loops controlled by ppGpp partition gene induction across the 'feast to famine' gradient in Escherichia coli
    • Traxler, M. F. et al. Discretely calibrated regulatory loops controlled by ppGpp partition gene induction across the 'feast to famine' gradient in Escherichia coli. Mol. Microbiol. 79, 830-845 (2010).
    • (2010) Mol. Microbiol. , vol.79 , pp. 830-845
    • Traxler, M.F.1
  • 52
    • 0034897157 scopus 로고    scopus 로고
    • Autoamplification of a two-component regulatory system results in "Learning" behavior
    • DOI 10.1128/JB.183.16.4914-4917.2001
    • Hoffer, S. M., Westerhoff, H. V., Hellingwerf, K. J., Postma, P. W. & Tommassen, J. Autoamplification of a two-component regulatory system results in "learning" behavior. J. Bacteriol. 183, 4914-4917 (2001). (Pubitemid 32708978)
    • (2001) Journal of Bacteriology , vol.183 , Issue.16 , pp. 4914-4917
    • Hoffer, S.M.1    Westerhoff, H.V.2    Hellingwerf, K.J.3    Postma, P.W.4    Tommassen, J.5
  • 53
    • 77952417100 scopus 로고    scopus 로고
    • Broadly heterogeneous activation of the master regulator for sporulation in Bacillus subtilis
    • Chastanet, A. et al. Broadly heterogeneous activation of the master regulator for sporulation in Bacillus subtilis. Proc. Natl Acad. Sci. USA 107, 8486-8491 (2010).
    • (2010) Proc. Natl Acad. Sci. USA , vol.107 , pp. 8486-8491
    • Chastanet, A.1
  • 54
    • 66149121458 scopus 로고    scopus 로고
    • Complexity in bacterial cell-cell communication: Quorum signal integration and subpopulation signaling in the Bacillus subtilis phosphorelay
    • Bischofs, I. B., Hug, J. A., Liu, A. W., Wolf, D. M. & Arkin, A. P. Complexity in bacterial cell-cell communication: quorum signal integration and subpopulation signaling in the Bacillus subtilis phosphorelay. Proc. Natl Acad. Sci. USA 106, 6459-6464 (2009).
    • (2009) Proc. Natl Acad. Sci. USA , vol.106 , pp. 6459-6464
    • Bischofs, I.B.1    Hug, J.A.2    Liu, A.W.3    Wolf, D.M.4    Arkin, A.P.5
  • 55
    • 75849116320 scopus 로고    scopus 로고
    • Deciding fate in adverse times: Sporulation and competence in Bacillus subtilis
    • Schultz, D., Wolynes, P. G., Jacob, E. & Onuchic, J. N. Deciding fate in adverse times: Sporulation and competence in Bacillus subtilis. Proc. Natl Acad. Sci. USA 106, 21027-21034 (2009).
    • (2009) Proc. Natl Acad. Sci. USA , vol.106 , pp. 21027-21034
    • Schultz, D.1    Wolynes, P.G.2    Jacob, E.3    Onuchic, J.N.4
  • 56
    • 77957671714 scopus 로고    scopus 로고
    • The role of coupled positive feedback in the expression of the SPI1 type three secretion system in Salmonella
    • Saini, S., Ellermeier, J. R., Slauch, J. M. & Rao, C. V. The role of coupled positive feedback in the expression of the SPI1 type three secretion system in Salmonella. PLoS Pathog. 6, e1001025 (2010).
    • (2010) PLoS Pathog. , vol.6
    • Saini, S.1    Ellermeier, J.R.2    Slauch, J.M.3    Rao, C.V.4
  • 58
    • 67650373897 scopus 로고    scopus 로고
    • On the functional diversity of dynamical behaviour in genetic and metabolic feedback systems
    • Nguyen, L. K. & Kulasiri, D. On the functional diversity of dynamical behaviour in genetic and metabolic feedback systems. BMC Syst. Biol. 3, 51 (2009).
    • (2009) BMC Syst. Biol. , vol.3 , pp. 51
    • Nguyen, L.K.1    Kulasiri, D.2
  • 59
    • 40649083597 scopus 로고    scopus 로고
    • Strong negative self regulation of Prokaryotic transcription factors increases the intrinsic noise of protein expression
    • Stekel, D. J. & Jenkins, D. J. Strong negative self regulation of Prokaryotic transcription factors increases the intrinsic noise of protein expression. BMC Syst. Biol. 2, 6 (2008).
    • (2008) BMC Syst. Biol. , vol.2 , pp. 6
    • Stekel, D.J.1    Jenkins, D.J.2
  • 60
    • 34047097244 scopus 로고    scopus 로고
    • Growth-induced instability in metabolic networks
    • Goyal, S. & Wingreen, N. S. Growth-induced instability in metabolic networks. Phys. Rev. Lett. 98,138105 (2007).
    • (2007) Phys. Rev. Lett. , vol.98 , pp. 138105
    • Goyal, S.1    Wingreen, N.S.2
  • 61
    • 34247617729 scopus 로고    scopus 로고
    • Multiple feedback loop design in the tryptophan regulatory network of Escherichia coli suggests a paradigm for robust regulation of processes in series
    • DOI 10.1098/rsif.2005.0103
    • Bhartiya, S., Chaudhary, N., Venkatesh, K. V. & Doyle, F. J. Multiple feedback loop design in the tryptophan regulatory network of Escherichia coli suggests a paradigm for robust regulation of processes in series. J. R. Soc. Interface 3, 383-391 (2006). (Pubitemid 46682094)
    • (2006) Journal of the Royal Society Interface , vol.3 , Issue.8 , pp. 383-391
    • Bhartiya, S.1    Chaudhary, N.2    Venkatesh, K.V.3    Doyle III, F.J.4
  • 62
    • 77749327485 scopus 로고    scopus 로고
    • Getting in the loop: Regulation of development in Caulobacter crescentus
    • Curtis, P. D. & Brun, Y. V. Getting in the loop: Regulation of development in Caulobacter crescentus. Microbiol. Mol. Biol. Rev. 74, 13-41 (2010).
    • (2010) Microbiol. Mol. Biol. Rev. , vol.74 , pp. 13-41
    • Curtis, P.D.1    Brun, Y.V.2
  • 63
    • 71749085978 scopus 로고    scopus 로고
    • The role of proteolysis in the Caulobacter crescentus cell cycle and development
    • Jenal, U. The role of proteolysis in the Caulobacter crescentus cell cycle and development. Res. Microbiol. 160, 687-695 (2009).
    • (2009) Res. Microbiol. , vol.160 , pp. 687-695
    • Jenal, U.1
  • 64
    • 33750531252 scopus 로고    scopus 로고
    • Chromosome organization and segregation in bacteria
    • DOI 10.1016/j.jsb.2006.05.007, PII S1047847706001869
    • Thanbichler, M. & Shapiro, L. Chromosome organization and segregation in bacteria. J. Struct. Biol. 156, 292-303 (2006). (Pubitemid 44666446)
    • (2006) Journal of Structural Biology , vol.156 , Issue.2 , pp. 292-303
    • Thanbichler, M.1    Shapiro, L.2
  • 66
    • 42949140533 scopus 로고    scopus 로고
    • Allosteric Regulation of Histidine Kinases by Their Cognate Response Regulator Determines Cell Fate
    • DOI 10.1016/j.cell.2008.02.045, PII S0092867408003954
    • Paul, R. et al. Allosteric regulation of histidine kinases by their cognate response regulator determines cell fate. Cell 133, 452-461 (2008). (Pubitemid 351608690)
    • (2008) Cell , vol.133 , Issue.3 , pp. 452-461
    • Paul, R.1    Jaeger, T.2    Abel, S.3    Wiederkehr, I.4    Folcher, M.5    Biondi, E.G.6    Laub, M.T.7    Jenal, U.8
  • 67
    • 79551629682 scopus 로고    scopus 로고
    • Spatial gradient of protein phosphorylation underlies replicative asymmetry in a bacterium
    • An experimentally driven study of the C. crescentus cell cycle, making use of mathematical modelling and simulation to circumvent experimental constraints and arrive at a compelling conceptual model.
    • Chen, Y. E. et al. Spatial gradient of protein phosphorylation underlies replicative asymmetry in a bacterium. Proc. Natl Acad. Sci. USA 108, 1052-1057 (2011). An experimentally driven study of the C. crescentus cell cycle, making use of mathematical modelling and simulation to circumvent experimental constraints and arrive at a compelling conceptual model.
    • (2011) Proc. Natl Acad. Sci. USA , vol.108 , pp. 1052-1057
    • Chen, Y.E.1
  • 68
    • 3343014150 scopus 로고    scopus 로고
    • Morphological and functional asymmetry in α-proteobacteria
    • An experimentally driven study of the C. crescentus cell cycle, making use of mathematical modelling and simulation to circumvent experimental constraints and arrive at a compelling conceptual model. 68. Hallez, R., Bellefontaine, A.-F., Letesson, J.-J. & De Bolle, X. Morphological and functional asymmetry in α-proteobacteria Trends Microbiol. 12, 361-365 (2004).
    • (2004) Trends Microbiol. , vol.12 , pp. 361-365
    • Hallez, R.1    Bellefontaine, A.-F.2    Letesson, J.-J.3    De Bolle, X.4
  • 69
    • 0038724020 scopus 로고    scopus 로고
    • Senescence in a bacterium with asymmetric division
    • DOI 10.1126/science.1083532
    • Ackermann, M., Stearns, S. C. & Jenal, U. Senescence in a bacterium with asymmetric division. Science 300, 1920 (2003). (Pubitemid 36734592)
    • (2003) Science , vol.300 , Issue.5627 , pp. 1920
    • Ackermann, M.1    Stearns, S.C.2    Jenal, U.3
  • 70
    • 13944272143 scopus 로고    scopus 로고
    • Aging and death in an organism that reproduces by morphologically symmetric division
    • Stewart, E. J., Madden, R., Paul, G. & Taddei, F. Aging and death in an organism that reproduces by morphologically symmetric division. PLoS Biol. 3, e45 (2005).
    • (2005) PLoS Biol. , vol.3
    • Stewart, E.J.1    Madden, R.2    Paul, G.3    Taddei, F.4
  • 71
    • 28544440364 scopus 로고    scopus 로고
    • Reconstruction of genetic circuits
    • DOI 10.1038/nature04335, PII N04335
    • Sprinzak, D. & Elowitz, M. B. Reconstruction of genetic circuits. Nature 438, 443-448 (2005). (Pubitemid 41742009)
    • (2005) Nature , vol.438 , Issue.7067 , pp. 443-448
    • Sprinzak, D.1    Elowitz, M.B.2
  • 72
    • 0034688174 scopus 로고    scopus 로고
    • Construction of a genetic toggle switch in Escherichia coli
    • DOI 10.1038/35002131
    • Gardner, T. S., Cantor, C. R. & Collins, J. J. Construction of a genetic toggle switch in Escherichia coli. Nature 403, 339-342 (2000). (Pubitemid 30062394)
    • (2000) Nature , vol.403 , Issue.6767 , pp. 339-342
    • Gardner, T.S.1    Cantor, C.R.2    Collins, J.J.3
  • 74
    • 0038241770 scopus 로고    scopus 로고
    • Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli
    • DOI 10.1016/S0092-8674(03)00346-5
    • Atkinson, M. R., Savageau, M. A., Myers, J. T. & Ninfa, A. J. Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli. Cell 113, 597-607 (2003). (Pubitemid 36694185)
    • (2003) Cell , vol.113 , Issue.5 , pp. 597-607
    • Atkinson, M.R.1    Savageau, M.A.2    Myers, J.T.3    Ninfa, A.J.4
  • 75
    • 0034688173 scopus 로고    scopus 로고
    • A synthetic oscillatory network of transcriptional regulators
    • DOI 10.1038/35002125
    • Elowitz, M. B. & Leibler, S. A synthetic oscillatory network of transcriptional regulators. Nature 403, 335-338 (2000). (Pubitemid 30062393)
    • (2000) Nature , vol.403 , Issue.6767 , pp. 335-338
    • Elowitz, M.B.1    Leibier, S.2
  • 77
    • 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., Paulsson, J., Zawilski, S. M. & Cox, E. C. Real-time kinetics of gene activity in individual bacteria. Cell 123, 1025-1036 (2005). (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
  • 78
    • 38349185928 scopus 로고    scopus 로고
    • Effects of molecular memory and bursting on fluctuations in gene expression
    • Pedraza, J. M. & Paulsson, J. Effects of molecular memory and bursting on fluctuations in gene expression. Science 319, 339-343 (2008).
    • (2008) Science , vol.319 , pp. 339-343
    • Pedraza, J.M.1    Paulsson, J.2
  • 79
    • 15544371346 scopus 로고    scopus 로고
    • Gene regulation at the single-cell level
    • DOI 10.1126/science.1106914
    • Rosenfeld, N., Young, J. W., Alon, U., Swain, P. S. & Elowitz, M. B. Gene regulation at the single-cell level. Science 307, 1962-1965 (2005). (Pubitemid 40404705)
    • (2005) Science , vol.307 , Issue.5717 , pp. 1962-1965
    • Rosenfeld, N.1    Young, J.W.2    Alon, U.3    Swain, P.S.4    Elowitz, M.B.5
  • 80
    • 15544388848 scopus 로고    scopus 로고
    • Noise propagation in gene networks
    • Pedraza, J. M. & van Oudenaarden, A. Noise propagation in gene networks. Science 307, 1965-1969 (2005).
    • (2005) Science , vol.307 , pp. 1965-1969
    • Pedraza, J.M.1    Van Oudenaarden, A.2
  • 81
    • 0037119587 scopus 로고    scopus 로고
    • Stochastic gene expression in a single cell
    • DOI 10.1126/science.1070919
    • Elowitz, M. B., Levine, A. J., Siggia, E. D. & Swain, P. S. Stochastic gene expression in a single cell. Science 297, 1183-1186 (2002). (Pubitemid 36193353)
    • (2002) Science , vol.297 , Issue.5584 , pp. 1183-1186
    • Elowitz, M.B.1    Levine, A.J.2    Siggia, E.D.3    Swain, P.S.4
  • 82
    • 29144482539 scopus 로고    scopus 로고
    • Environmentally controlled invasion of cancer cells by engineered bacteria
    • DOI 10.1016/j.jmb.2005.10.076, PII S0022283605013380
    • Anderson, J. C., Clarke, E. J., Arkin, A. P. & Voigt, C. A. Environmentally controlled invasion of cancer cells by engineered bacteria. J. Mol. Biol. 355, 619-627 (2006). (Pubitemid 41817623)
    • (2006) Journal of Molecular Biology , vol.355 , Issue.4 , pp. 619-627
    • Anderson, J.C.1    Clarke, E.J.2    Arkin, A.P.3    Voigt, C.A.4
  • 84
    • 70349964350 scopus 로고    scopus 로고
    • Automated design of synthetic ribosome binding sites to control protein expression
    • Salis, H. M., Mirsky, E. A. & Voigt, C. A. Automated design of synthetic ribosome binding sites to control protein expression. Nature Biotech. 27, 946-950 (2009).
    • (2009) Nature Biotech. , vol.27 , pp. 946-950
    • Salis, H.M.1    Mirsky, E.A.2    Voigt, C.A.3
  • 85
    • 77952611328 scopus 로고    scopus 로고
    • Mathematical modeling of translation initiation for the estimation of its efficiency to computationally design mRNA sequences with desired expression levels in prokaryotes
    • Na, D., Lee, S. & Lee, D. Mathematical modeling of translation initiation for the estimation of its efficiency to computationally design mRNA sequences with desired expression levels in prokaryotes. BMC Syst. Biol. 4, 71 (2010).
    • (2010) BMC Syst. Biol. , vol.4 , pp. 71
    • Na, D.1    Lee, S.2    Lee, D.3
  • 86
    • 3042784273 scopus 로고    scopus 로고
    • Creating random mutagenesis libraries by megaprimer PCR of whole plasmid (MEGAWHOP)
    • Miyazaki, K. Creating random mutagenesis libraries by megaprimer PCR of whole plasmid (MEGAWHOP). Methods Mol. Biol. 231, 23-28 (2003).
    • (2003) Methods Mol. Biol. , vol.231 , pp. 23-28
    • Miyazaki, K.1
  • 87
    • 57049159362 scopus 로고    scopus 로고
    • A fast, robust and tunable synthetic gene oscillator
    • DOI 10.1038/nature07389, PII NATURE07389
    • Stricker, J. et al. A fast, robust and tunable synthetic gene oscillator. Nature 456, 516-519 (2008). This article describes the engineering of a robust, tunable synthetic oscillator. The results illustrate the importance of post-transcriptional delays for the dynamic functionality of gene-regulatory networks. (Pubitemid 352759003)
    • (2008) Nature , vol.456 , Issue.7221 , pp. 516-519
    • Stricker, J.1    Cookson, S.2    Bennett, M.R.3    Mather, W.H.4    Tsimring, L.S.5    Hasty, J.6
  • 88
    • 75149191906 scopus 로고    scopus 로고
    • A synchronized quorum of genetic clocks
    • This article describes the engineering of a robust, tunable synthetic oscillator. The results illustrate the importance of post-transcriptional delays for the dynamic functionality of gene-regulatory networks. 88. Danino, T., Mondragon-Palomino, O., Tsimring, L. & Hasty, J. A synchronized quorum of genetic clocks Nature ,463, 326-330 (2010).
    • (2010) Nature , vol.463 , pp. 326-330
    • Danino, T.1    Mondragon-Palomino, O.2    Tsimring, L.3    Hasty, J.4
  • 89
    • 77952944052 scopus 로고    scopus 로고
    • Designing customized cell signalling circuits
    • Lim, W. A. Designing customized cell signalling circuits. Nature Rev. Mol. Cell Biol. 11, 393-403 (2010).
    • (2010) Nature Rev. Mol. Cell Biol. , vol.11 , pp. 393-403
    • Lim, W.A.1
  • 90
    • 0038391517 scopus 로고    scopus 로고
    • Engineering a mevalonate pathway in Escherichia coli for production of terpenoids
    • DOI 10.1038/nbt833
    • Martin, V. J. J., Pitera, D. J., Withers, S. T., Newman, J. D. & Keasling, J. D. Engineering a mevalonate pathway in Escherichia coli for production of terpenoids. Nature Biotech. 21, 796-802 (2003). (Pubitemid 36791399)
    • (2003) Nature Biotechnology , vol.21 , Issue.7 , pp. 796-802
    • Martin, V.J.J.1    Piteral, D.J.2    Withers, S.T.3    Newman, J.D.4    Keasling, J.D.5
  • 91
    • 68449088806 scopus 로고    scopus 로고
    • Synthetic protein scaffolds provide modular control over metabolic flux
    • A clever non-transcriptional-modification scheme is shown to greatly boost efficiency in a synthetic metabolic pathway, laying fundamental groundwork for mechanistic synthetic biology
    • Dueber, J. E. et al. Synthetic protein scaffolds provide modular control over metabolic flux. Nature Biotech. 27, 753-759 (2009). A clever non-transcriptional-modification scheme is shown to greatly boost efficiency in a synthetic metabolic pathway, laying fundamental groundwork for mechanistic synthetic biology.
    • (2009) Nature Biotech. , vol.27 , pp. 753-759
    • Dueber, J.E.1
  • 92
    • 38749148516 scopus 로고    scopus 로고
    • Synthetic biology for synthetic chemistry
    • DOI 10.1021/cb7002434
    • Keasling, J. D. Synthetic biology for synthetic chemistry. ACS Chem. Biol. 3, 64-76 (2008). (Pubitemid 351227986)
    • (2008) ACS Chemical Biology , vol.3 , Issue.1 , pp. 64-76
    • Keasling, J.D.1
  • 93
    • 77955955391 scopus 로고    scopus 로고
    • The stressosome: Molecular architecture of a signalling hub
    • Marles-Wright, J. & Lewis, R. J. The stressosome: Molecular architecture of a signalling hub. Biochem. Soc. Trans. 38, 928-933 (2010).
    • (2010) Biochem. Soc. Trans. , vol.38 , pp. 928-933
    • Marles-Wright, J.1    Lewis, R.J.2
  • 94
    • 53349176566 scopus 로고    scopus 로고
    • Molecular architecture of the "stressosome, " a signal integration and transduction hub
    • Marles-Wright, J. et al. Molecular architecture of the "stressosome, " a signal integration and transduction hub. Science 322, 92-96 (2008).
    • (2008) Science , vol.322 , pp. 92-96
    • Marles-Wright, J.1
  • 95
    • 69349099313 scopus 로고    scopus 로고
    • Role of translational coupling in robustness of bacterial chemotaxis pathway
    • Løvdok, L. et al. Role of translational coupling in robustness of bacterial chemotaxis pathway. PLoS Biol. 7, e1000171 (2009).
    • (2009) PLoS Biol. , vol.7
    • Løvdok, L.1
  • 96
    • 39449115716 scopus 로고    scopus 로고
    • Ab initio thermodynamic modeling of distal multisite transcription regulation
    • DOI 10.1093/nar/gkm1034
    • Saiz, L. & Vilar, J. M. J. Ab initio thermodynamic modeling of distal multisite transcription regulation. Nucleic Acids Res. 36, 726-731 (2008). (Pubitemid 351267230)
    • (2008) Nucleic Acids Research , vol.36 , Issue.3 , pp. 726-731
    • Saiz, L.1    Vilar, J.M.G.2
  • 97
    • 66049146558 scopus 로고    scopus 로고
    • Quantifying the integration of quorum-sensing signals with single-cell resolution
    • Long, T. et al. Quantifying the integration of quorum-sensing signals with single-cell resolution. PLoS Biol. 7, e1000068 (2009).
    • (2009) PLoS Biol. , vol.7
    • Long, T.1
  • 98
    • 0001364051 scopus 로고
    • The Existence and Uniqueness of Steady States for a Class of Chemical Reaction Networks
    • Feinberg, M. The existence and uniqueness of steady states for a class of chemical reaction networks. Arch. Rational Mech. Anal. 132, 311-370 (1995). (Pubitemid 126013836)
    • (1995) Archive for Rational Mechanics and Analysis , vol.132 , Issue.4 , pp. 311-370
    • Feinberg, M.1
  • 99
    • 77949398351 scopus 로고    scopus 로고
    • Structural sources of robustness in biochemical reaction networks
    • Shinar, G. & Feinberg, M. Structural sources of robustness in biochemical reaction networks. Science 327, 1389-1391 (2010).
    • (2010) Science , vol.327 , pp. 1389-1391
    • Shinar, G.1    Feinberg, M.2
  • 101
    • 36749094352 scopus 로고    scopus 로고
    • Input output robustness in simple bacterial signaling systems
    • Shinar, G., Milo, R., Martínez, M. R. & Alon, U. Input output robustness in simple bacterial signaling systems. Proc. Natl Acad. Sci. USA 104, 19931-19935 (2007).
    • (2007) Proc. Natl Acad. Sci. USA , vol.104 , pp. 19931-19935
    • Shinar, G.1    Milo, R.2    Martínez, M.R.3    Alon, U.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.