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Volumn 15, Issue 2, 2005, Pages 136-144

DNA looping in gene regulation: From the assembly of macromolecular complexes to the control of transcriptional noise

Author keywords

[No Author keywords available]

Indexed keywords

BETA GALACTOSIDASE; DNA; POLYMER; REGULATOR PROTEIN;

EID: 15744393452     PISSN: 0959437X     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.gde.2005.02.005     Document Type: Review
Times cited : (122)

References (43)
  • 1
    • 0021188333 scopus 로고
    • An operator at -280 base pairs that is required for repression of araBAD operon promoter: Addition of DNA helical turns between the operator and promoter cyclically hinders repression
    • T.M. Dunn, S. Hahn, S. Ogden, and R.F. Schleif An operator at -280 base pairs that is required for repression of araBAD operon promoter: addition of DNA helical turns between the operator and promoter cyclically hinders repression Proc Natl Acad Sci USA 81 1984 5017 5020
    • (1984) Proc Natl Acad Sci USA , vol.81 , pp. 5017-5020
    • Dunn, T.M.1    Hahn, S.2    Ogden, S.3    Schleif, R.F.4
  • 2
    • 0019769520 scopus 로고
    • The SV40 72 base repair repeat has a striking effect on gene expression both in SV40 and other chimeric recombinants
    • P. Moreau, R. Hen, B. Wasylyk, R. Everett, M.P. Gaub, and P. Chambon The SV40 72 base repair repeat has a striking effect on gene expression both in SV40 and other chimeric recombinants Nucleic Acids Res 9 1981 6047 6068
    • (1981) Nucleic Acids Res , vol.9 , pp. 6047-6068
    • Moreau, P.1    Hen, R.2    Wasylyk, B.3    Everett, R.4    Gaub, M.P.5    Chambon, P.6
  • 4
    • 0024811753 scopus 로고
    • Multipartite genetic control elements: Communication by DNA loop
    • S. Adhya Multipartite genetic control elements: communication by DNA loop Annu Rev Genet 23 1989 227 250
    • (1989) Annu Rev Genet , vol.23 , pp. 227-250
    • Adhya, S.1
  • 6
    • 4444293086 scopus 로고    scopus 로고
    • edn 3 Cold Spring Harbor Laboratory Press
    • M. Ptashne A Genetic Switch: Phage Lambda Revisited edn 3 2004 Cold Spring Harbor Laboratory Press This book is one of most illuminating expositions of gene regulation. It explains in simple molecular terms how proteins bind to DNA and turn genes on and off as the phage λ virus grows in bacteria.
    • (2004) A Genetic Switch: Phage Lambda Revisited
    • Ptashne, M.1
  • 7
    • 0036923833 scopus 로고    scopus 로고
    • Looping and interaction between hypersensitive sites in the active β-globin locus
    • B. Tolhuis, R.J. Palstra, E. Splinter, F. Grosveld, and W. de Laat Looping and interaction between hypersensitive sites in the active β-globin locus Mol Cell 10 2002 1453 1465
    • (2002) Mol Cell , vol.10 , pp. 1453-1465
    • Tolhuis, B.1    Palstra, R.J.2    Splinter, E.3    Grosveld, F.4    De Laat, W.5
  • 8
    • 0028922082 scopus 로고
    • The regulation of transcription initiation by integration host factor
    • N. Goosen, and P. van de Putte The regulation of transcription initiation by integration host factor Mol Microbiol 16 1995 1 7
    • (1995) Mol Microbiol , vol.16 , pp. 1-7
    • Goosen, N.1    Van De Putte, P.2
  • 9
    • 0037126615 scopus 로고    scopus 로고
    • A simple mechanism for co-dependence on two activators at an Escherichia coli promoter
    • J.T. Wade, T.A. Belyaeva, E.I. Hyde, and S.J. Busby A simple mechanism for co-dependence on two activators at an Escherichia coli promoter EMBO J 20 2001 7160 7167
    • (2001) EMBO J , vol.20 , pp. 7160-7167
    • Wade, J.T.1    Belyaeva, T.A.2    Hyde, E.I.3    Busby, S.J.4
  • 11
    • 54249116230 scopus 로고
    • Genetic regulatory mechanisms in the synthesis of proteins
    • F. Jacob, and J. Monod Genetic regulatory mechanisms in the synthesis of proteins J Mol Biol 3 1961 318 356
    • (1961) J Mol Biol , vol.3 , pp. 318-356
    • Jacob, F.1    Monod, J.2
  • 13
    • 0033545416 scopus 로고    scopus 로고
    • Four dimers of lambda repressor bound to two suitably spaced pairs of lambda operators form octamers and DNA loops over large distances
    • B. Revet, B. von Wilcken-Bergmann, H. Bessert, A. Barker, and B. Müller-Hill Four dimers of lambda repressor bound to two suitably spaced pairs of lambda operators form octamers and DNA loops over large distances Curr Biol 9 1999 151 154
    • (1999) Curr Biol , vol.9 , pp. 151-154
    • Revet, B.1    Von Wilcken-Bergmann, B.2    Bessert, H.3    Barker, A.4    Müller-Hill, B.5
  • 14
    • 1042278041 scopus 로고    scopus 로고
    • Cooperativity in long-range gene regulation by the lambda CI repressor
    • I.B. Dodd, K.E. Shearwin, A.J. Perkins, T. Burr, A. Hochschild, and J.B. Egan Cooperativity in long-range gene regulation by the lambda CI repressor Genes Dev 18 2004 344 354 The authors discuss the experiments and thermodynamic basis of the formation of the DNA loop between the right and the left operators of phage λ.
    • (2004) Genes Dev , vol.18 , pp. 344-354
    • Dodd, I.B.1    Shearwin, K.E.2    Perkins, A.J.3    Burr, T.4    Hochschild, A.5    Egan, J.B.6
  • 15
    • 0035668536 scopus 로고    scopus 로고
    • Making contacts on a nucleic acid polymer
    • K. Rippe Making contacts on a nucleic acid polymer Trends Biochem Sci 26 2001 733 740
    • (2001) Trends Biochem Sci , vol.26 , pp. 733-740
    • Rippe, K.1
  • 16
    • 0029940132 scopus 로고    scopus 로고
    • Cooperativity mutants of bacteriophage λ cI repressor: Temperature dependence of self-assembly
    • D.S. Burz, and G.K. Ackers Cooperativity mutants of bacteriophage λ cI repressor: temperature dependence of self-assembly Biochemistry 35 1996 3341 3350
    • (1996) Biochemistry , vol.35 , pp. 3341-3350
    • Burz, D.S.1    Ackers, G.K.2
  • 17
    • 0345849436 scopus 로고    scopus 로고
    • Cold Spring Harbor Laboratory Press
    • M. Ptashne, and A. Gann Genes & Signals 2002 Cold Spring Harbor Laboratory Press This book describes the essence of the molecular mechanisms used by cells to regulate their function.
    • (2002) Genes & Signals
    • Ptashne, M.1    Gann, A.2
  • 19
    • 0024745871 scopus 로고
    • The price of lost freedom: Entropy of bimolecular complex formation
    • A.V. Finkelstein, and J. Janin The price of lost freedom: entropy of bimolecular complex formation Protein Eng 3 1989 1 3
    • (1989) Protein Eng , vol.3 , pp. 1-3
    • Finkelstein, A.V.1    Janin, J.2
  • 20
    • 0015101706 scopus 로고
    • Entropic contributions to rate accelerations in enzymic and intramolecular reactions and the chelate effect
    • M.I. Page, and W.P. Jencks Entropic contributions to rate accelerations in enzymic and intramolecular reactions and the chelate effect Proc Natl Acad Sci USA 68 1971 1678 1683
    • (1971) Proc Natl Acad Sci USA , vol.68 , pp. 1678-1683
    • Page, M.I.1    Jencks, W.P.2
  • 21
    • 0042622638 scopus 로고    scopus 로고
    • DNA looping and physical constraints on transcription regulation
    • Vilar JMG, and S. Leibler DNA looping and physical constraints on transcription regulation J Mol Biol 331 2003 981 989 The authors use thermodynamic models of the lac operon in E. coli to explore the effects of DNA looping in gene regulation. They demonstrate that DNA looping can provide a mechanism to regulate not only the average properties of transcription but also its fluctuations.
    • (2003) J Mol Biol , vol.331 , pp. 981-989
    • Jmg, V.1    Leibler, S.2
  • 22
    • 0029975889 scopus 로고    scopus 로고
    • Repression of lac promoter as a function of distance, phase and quality of an auxiliary lac operator
    • J. Müller, S. Oehler, and B. Müller-Hill Repression of lac promoter as a function of distance, phase and quality of an auxiliary lac operator J Mol Biol 257 1996 21 29
    • (1996) J Mol Biol , vol.257 , pp. 21-29
    • Müller, J.1    Oehler, S.2    Müller-Hill, B.3
  • 23
    • 0037974405 scopus 로고    scopus 로고
    • Entropy loss in long-distance DNA looping
    • A. Hanke, and R. Metzler Entropy loss in long-distance DNA looping Biophys J 85 2003 167 173
    • (2003) Biophys J , vol.85 , pp. 167-173
    • Hanke, A.1    Metzler, R.2
  • 24
    • 0017185026 scopus 로고
    • Non-genetic individuality: Chance in the single cell
    • J.L. Spudich, and D.E. Koshland Jr. Non-genetic individuality: chance in the single cell Nature 262 1976 467 471
    • (1976) Nature , vol.262 , pp. 467-471
    • Spudich, J.L.1    Koshland Jr., D.E.2
  • 25
    • 1842484290 scopus 로고    scopus 로고
    • From molecular noise to behavioural variability in a single bacterium
    • E. Korobkova, T. Emonet, J.M. Vilar, T.S. Shimizu, and P. Cluzel From molecular noise to behavioural variability in a single bacterium Nature 428 2004 574 578
    • (2004) Nature , vol.428 , pp. 574-578
    • Korobkova, E.1    Emonet, T.2    Vilar, J.M.3    Shimizu, T.S.4    Cluzel, P.5
  • 26
    • 0037078982 scopus 로고    scopus 로고
    • Control, exploitation and tolerance of intracellular noise
    • C.V. Rao, D.M. Wolf, and A.P. Arkin Control, exploitation and tolerance of intracellular noise Nature 420 2002 231 237
    • (2002) Nature , vol.420 , pp. 231-237
    • Rao, C.V.1    Wolf, D.M.2    Arkin, A.P.3
  • 27
    • 0037936613 scopus 로고    scopus 로고
    • Modeling network dynamics: The lac operon, a case study
    • Vilar JMG, C.C. Guet, and S. Leibler Modeling network dynamics: the lac operon, a case study J Cell Biol 161 2003 471 476
    • (2003) J Cell Biol , vol.161 , pp. 471-476
    • Jmg, V.1    Guet, C.C.2    Leibler, S.3
  • 28
    • 0015547229 scopus 로고
    • Distribution of suboptimally induces -d-galactosidase in Escherichia coli. The enzyme content of individual cells
    • P.C. Maloney, and B. Rotman Distribution of suboptimally induces -d-galactosidase in Escherichia coli. The enzyme content of individual cells J Mol Biol 73 1973 77 91
    • (1973) J Mol Biol , vol.73 , pp. 77-91
    • Maloney, P.C.1    Rotman, B.2
  • 29
    • 0842285841 scopus 로고    scopus 로고
    • Summing up the noise in gene networks
    • J. Paulsson Summing up the noise in gene networks Nature 427 2004 415 418
    • (2004) Nature , vol.427 , pp. 415-418
    • Paulsson, J.1
  • 31
    • 2942718723 scopus 로고    scopus 로고
    • Control of stochasticity in eukaryotic gene expression
    • J.M. Raser, and E.K. O'Shea Control of stochasticity in eukaryotic gene expression Science 304 2004 1811 1814
    • (2004) Science , vol.304 , pp. 1811-1814
    • Raser, J.M.1    O'Shea, E.K.2
  • 33
    • 19544379865 scopus 로고    scopus 로고
    • Localized single-stranded bubble mechanism for cyclization of short double helix DNA
    • •].
    • (2004) Phys Rev Lett , vol.93 , pp. 108108
    • Yan, J.1    Marko, J.F.2
  • 36
    • 0026659283 scopus 로고
    • How Lac repressor finds lac operator in vitro
    • R. Fickert, and B. Müller-Hill How Lac repressor finds lac operator in vitro J Mol Biol 226 1992 59 68
    • (1992) J Mol Biol , vol.226 , pp. 59-68
    • Fickert, R.1    Müller-Hill, B.2
  • 37
    • 0023665179 scopus 로고
    • Influence of sequence and distance between two operators on interaction with the lac repressor
    • W.T. Hsieh, P.A. Whitson, K.S. Matthews, and R.D. Wells Influence of sequence and distance between two operators on interaction with the lac repressor J Biol Chem 262 1987 14583 14591
    • (1987) J Biol Chem , vol.262 , pp. 14583-14591
    • Hsieh, W.T.1    Whitson, P.A.2    Matthews, K.S.3    Wells, R.D.4
  • 38
    • 0025122786 scopus 로고
    • Theoretical and experimental analysis of the phage λ genetic switch implies missing levels of co-operativity
    • J. Reinitz, and J.R. Vaisnys Theoretical and experimental analysis of the phage λ genetic switch implies missing levels of co-operativity J Theor Biol 145 1990 295 318
    • (1990) J Theor Biol , vol.145 , pp. 295-318
    • Reinitz, J.1    Vaisnys, J.R.2
  • 40
    • 0033517148 scopus 로고    scopus 로고
    • Robustness of a gene regulatory circuit
    • J.W. Little, D.P. Shepley, and D.W. Wert Robustness of a gene regulatory circuit EMBO J 18 1999 4299 4307
    • (1999) EMBO J , vol.18 , pp. 4299-4307
    • Little, J.W.1    Shepley, D.P.2    Wert, D.W.3
  • 41
    • 4644349809 scopus 로고    scopus 로고
    • DNA-looping by RXR tetramers permits transcriptional regulation "at a distance"
    • R. Yasmin, K.T. Yeung, R.H. Chung, M.E. Gaczynska, P.A. Osmulski, and N. Noy DNA-looping by RXR tetramers permits transcriptional regulation "at a distance" J Mol Biol 343 2004 327 338
    • (2004) J Mol Biol , vol.343 , pp. 327-338
    • Yasmin, R.1    Yeung, K.T.2    Chung, R.H.3    Gaczynska, M.E.4    Osmulski, P.A.5    Noy, N.6
  • 43
    • 0037165942 scopus 로고    scopus 로고
    • Combinatorial synthesis of genetic networks
    • C.C. Guet, M.B. Elowitz, W. Hsing, and S. Leibler Combinatorial synthesis of genetic networks Science 296 2002 1466 1470
    • (2002) Science , vol.296 , pp. 1466-1470
    • Guet, C.C.1    Elowitz, M.B.2    Hsing, W.3    Leibler, S.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.