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Volumn 14, Issue 9, 2007, Pages 796-806

In vivo dynamics of RNA polymerase II transcription

Author keywords

[No Author keywords available]

Indexed keywords

5,6 DICHLOROBENZIMIDAZOLE RIBOSIDE; CAMPTOTHECIN; DACTINOMYCIN; DNA TOPOISOMERASE; DOXYCYCLINE; GREEN FLUORESCENT PROTEIN; MESSENGER RNA; RNA POLYMERASE II; TETRACYCLINE;

EID: 34548507690     PISSN: 15459993     EISSN: 15459985     Source Type: Journal    
DOI: 10.1038/nsmb1280     Document Type: Article
Times cited : (540)

References (60)
  • 1
    • 24644502657 scopus 로고    scopus 로고
    • From birth to death: The complex lives of eukaryotic mRNAs
    • Moore, M.J. From birth to death: the complex lives of eukaryotic mRNAs. Science 309, 1514-1518 (2005).
    • (2005) Science , vol.309 , pp. 1514-1518
    • Moore, M.J.1
  • 3
    • 0035827346 scopus 로고    scopus 로고
    • Structural basis of transcription: RNA polymerase II at 2.8 angstrom resolution
    • Cramer, P., Bushnell, D.A. & Kornberg, R.D. Structural basis of transcription: RNA polymerase II at 2.8 angstrom resolution. Science 292, 1863-1876 (2001).
    • (2001) Science , vol.292 , pp. 1863-1876
    • Cramer, P.1    Bushnell, D.A.2    Kornberg, R.D.3
  • 4
    • 1942535198 scopus 로고    scopus 로고
    • RNA polymerase II structure: From core to functional complexes
    • Cramer, P. RNA polymerase II structure: from core to functional complexes. Curr. Opin. Genet. Dev. 14, 218-226 (2004).
    • (2004) Curr. Opin. Genet. Dev , vol.14 , pp. 218-226
    • Cramer, P.1
  • 5
    • 0028924386 scopus 로고
    • Promoter-proximal pausing of RNA polymerase II defines a general rate-limiting step after transcription initiation
    • Krumm, A., Hickey, L.B. & Groudine, M. Promoter-proximal pausing of RNA polymerase II defines a general rate-limiting step after transcription initiation. Genes Dev. 9, 559-572 (1995).
    • (1995) Genes Dev , vol.9 , pp. 559-572
    • Krumm, A.1    Hickey, L.B.2    Groudine, M.3
  • 6
    • 0037073047 scopus 로고    scopus 로고
    • Promoter escape by RNA polymerase II
    • Dvir, A. Promoter escape by RNA polymerase II. Biochim. Biophys. Acta 1577, 208-223 (2002).
    • (2002) Biochim. Biophys. Acta , vol.1577 , pp. 208-223
    • Dvir, A.1
  • 7
    • 0019876546 scopus 로고
    • Efficient and selective initiation by yeast RNA polymerase B in a dinucleotide-primed reaction
    • Lescure, B., Williamson, V. & Sentenac, A. Efficient and selective initiation by yeast RNA polymerase B in a dinucleotide-primed reaction. Nucleic Acids Res. 9, 31-45 (1981).
    • (1981) Nucleic Acids Res , vol.9 , pp. 31-45
    • Lescure, B.1    Williamson, V.2    Sentenac, A.3
  • 8
    • 0031463993 scopus 로고    scopus 로고
    • Three transitions in the RNA polymerase II transcription complex during initiation
    • Holstege, F.C., Fiedler, U. & Timmers, H.T. Three transitions in the RNA polymerase II transcription complex during initiation. EMBO J. 16, 7468-7480 (1997).
    • (1997) EMBO J , vol.16 , pp. 7468-7480
    • Holstege, F.C.1    Fiedler, U.2    Timmers, H.T.3
  • 9
    • 33751212468 scopus 로고    scopus 로고
    • Initial transcription by RNA polymerase proceeds through a DNA-scrunching mechanism
    • Kapanidis, A.N. et al. Initial transcription by RNA polymerase proceeds through a DNA-scrunching mechanism. Science 314, 1144-1147 (2006).
    • (2006) Science , vol.314 , pp. 1144-1147
    • Kapanidis, A.N.1
  • 10
    • 33645765585 scopus 로고    scopus 로고
    • Direct observation of abortive initiation and promoter escape within single immobilized transcription complexes
    • Margeat, E. et al. Direct observation of abortive initiation and promoter escape within single immobilized transcription complexes. Biophys. J. 90, 1419-1431 (2006).
    • (2006) Biophys. J , vol.90 , pp. 1419-1431
    • Margeat, E.1
  • 11
    • 0037109057 scopus 로고    scopus 로고
    • Single molecule analysis of RNA polymerase elongation reveals uniform kinetic behavior
    • Adelman, K. et al. Single molecule analysis of RNA polymerase elongation reveals uniform kinetic behavior. Proc. Natl. Acad. Sci. USA 99, 13538-13543 (2002).
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 13538-13543
    • Adelman, K.1
  • 12
    • 0034737593 scopus 로고    scopus 로고
    • Single-molecule study of transcriptional pausing and arrest by E. coli RNA polymerase
    • Davenport, R.J., Wuite, G.J., Landick, R. & Bustamante, C. Single-molecule study of transcriptional pausing and arrest by E. coli RNA polymerase. Science 287, 2497-2500 (2000).
    • (2000) Science , vol.287 , pp. 2497-2500
    • Davenport, R.J.1    Wuite, G.J.2    Landick, R.3    Bustamante, C.4
  • 13
    • 0027157980 scopus 로고
    • Rapid changes in Drosophila transcription after an instantaneous heat shock
    • O'Brien, T. & Lis, J.T. Rapid changes in Drosophila transcription after an instantaneous heat shock. Mol. Cell. Biol. 13, 3456-3463 (1993).
    • (1993) Mol. Cell. Biol , vol.13 , pp. 3456-3463
    • O'Brien, T.1    Lis, J.T.2
  • 14
    • 0028837312 scopus 로고
    • The human dystrophin gene requires 16 hours to be transcribed and is cotranscriptionally spliced
    • Tennyson, C.N., Klamut, H.J. & Worton, R.G. The human dystrophin gene requires 16 hours to be transcribed and is cotranscriptionally spliced. Nat. Genet. 9, 184-190 (1995).
    • (1995) Nat. Genet , vol.9 , pp. 184-190
    • Tennyson, C.N.1    Klamut, H.J.2    Worton, R.G.3
  • 16
    • 0032185810 scopus 로고    scopus 로고
    • Localization of ASH1 mRNA particles in living yeast
    • Bertrand, E. et al. Localization of ASH1 mRNA particles in living yeast. Mol. Cell 2, 437-445 (1998).
    • (1998) Mol. Cell , vol.2 , pp. 437-445
    • Bertrand, E.1
  • 17
    • 12144289862 scopus 로고    scopus 로고
    • From silencing to gene expression: Real-time analysis in single cells
    • Janicki, S.M. et al. From silencing to gene expression: real-time analysis in single cells. Cell 116, 683-698 (2004).
    • (2004) Cell , vol.116 , pp. 683-698
    • Janicki, S.M.1
  • 18
    • 0030461543 scopus 로고    scopus 로고
    • In vivo localization of DNA sequences and visualization of large-scale chromatin organization using lac operator/repressor recognition
    • Robinett, C.C. et al. In vivo localization of DNA sequences and visualization of large-scale chromatin organization using lac operator/repressor recognition. J. Cell Biol. 135, 1685-1700 (1996).
    • (1996) J. Cell Biol , vol.135 , pp. 1685-1700
    • Robinett, C.C.1
  • 19
    • 2942733310 scopus 로고    scopus 로고
    • Dynamics of single mRNPs in nuclei of living cells
    • Shav-Tal, Y. et al. Dynamics of single mRNPs in nuclei of living cells. Science 304, 1797-1800 (2004).
    • (2004) Science , vol.304 , pp. 1797-1800
    • Shav-Tal, Y.1
  • 20
    • 0032562720 scopus 로고    scopus 로고
    • Visualization of single RNA transcripts in situ
    • Femino, A.M., Fay, F.S., Fogarty, K. & Singer, R.H. Visualization of single RNA transcripts in situ. Science 280, 585-590 (1998).
    • (1998) Science , vol.280 , pp. 585-590
    • Femino, A.M.1    Fay, F.S.2    Fogarty, K.3    Singer, R.H.4
  • 21
    • 0347156907 scopus 로고    scopus 로고
    • Single mRNA molecules demonstrate probabilistic movement in living mammalian cells
    • Fusco, D. et al. Single mRNA molecules demonstrate probabilistic movement in living mammalian cells. Curr. Biol. 13, 161-167 (2003).
    • (2003) Curr. Biol , vol.13 , pp. 161-167
    • Fusco, D.1
  • 22
    • 19344378943 scopus 로고    scopus 로고
    • Rules of engagement: Co-transcriptional recruitment of pre-mRNA processing factors
    • Bentley, D.L. Rules of engagement: co-transcriptional recruitment of pre-mRNA processing factors. Curr. Opin. Cell Biol. 17, 251-256 (2005).
    • (2005) Curr. Opin. Cell Biol , vol.17 , pp. 251-256
    • Bentley, D.L.1
  • 23
    • 33646076438 scopus 로고    scopus 로고
    • Stepwise RNP assembly at the site of H/ACA RNA transcription in human cells
    • Darzacq, X. et al. Stepwise RNP assembly at the site of H/ACA RNA transcription in human cells. J. Cell Biol. 173, 207-218 (2006).
    • (2006) J. Cell Biol , vol.173 , pp. 207-218
    • Darzacq, X.1
  • 24
    • 0141815505 scopus 로고    scopus 로고
    • Investigating RNA polymerase II carboxyl-terminal domain (CTD) phosphorylation
    • Palancade, B. & Bensaude, O. Investigating RNA polymerase II carboxyl-terminal domain (CTD) phosphorylation. Eur. J. Biochem. 270, 3859-3870 (2003).
    • (2003) Eur. J. Biochem , vol.270 , pp. 3859-3870
    • Palancade, B.1    Bensaude, O.2
  • 25
    • 0035654399 scopus 로고    scopus 로고
    • Kinetic modelling approaches to in vivo imaging
    • Phair, R.D. & Misteli, T. Kinetic modelling approaches to in vivo imaging. Nat. Rev. Mol. Cell Biol. 2, 898-907 (2001).
    • (2001) Nat. Rev. Mol. Cell Biol , vol.2 , pp. 898-907
    • Phair, R.D.1    Misteli, T.2
  • 26
    • 9344225704 scopus 로고    scopus 로고
    • In vivo degradation of RNA polymerase II largest subunit triggered by alpha-amanitin
    • Nguyen, V.T. et al. In vivo degradation of RNA polymerase II largest subunit triggered by alpha-amanitin. Nucleic Acids Res. 24, 2924-2929 (1996).
    • (1996) Nucleic Acids Res , vol.24 , pp. 2924-2929
    • Nguyen, V.T.1
  • 27
    • 0013537360 scopus 로고    scopus 로고
    • Dynamic behavior of transcription factors on a natural promoter in living cells
    • 1188-1194
    • Becker, M. et al. Dynamic behavior of transcription factors on a natural promoter in living cells. EMBO Rep. 3, 1188-1194 (2002).
    • (2002) EMBO Rep , vol.3
    • Becker, M.1
  • 28
    • 15244358670 scopus 로고    scopus 로고
    • Distinction and relationship between elongation rate and processivity of RNA polymerase II in vivo
    • Mason, P.B. & Struhl, K. Distinction and relationship between elongation rate and processivity of RNA polymerase II in vivo. Mol. Cell 17, 831-840 (2005).
    • (2005) Mol. Cell , vol.17 , pp. 831-840
    • Mason, P.B.1    Struhl, K.2
  • 29
    • 14544293651 scopus 로고    scopus 로고
    • Structural basis of eukaryotic gene transcription
    • Boeger, H. et al. Structural basis of eukaryotic gene transcription. FEBS Lett. 579, 899-903 (2005).
    • (2005) FEBS Lett , vol.579 , pp. 899-903
    • Boeger, H.1
  • 30
    • 0034611785 scopus 로고    scopus 로고
    • High mobility of proteins in the mammalian cell nucleus
    • Phair, R.D. & Misteli, T. High mobility of proteins in the mammalian cell nucleus. Nature 404, 604-609 (2000).
    • (2000) Nature , vol.404 , pp. 604-609
    • Phair, R.D.1    Misteli, T.2
  • 31
    • 33645969033 scopus 로고    scopus 로고
    • Dissecting the contribution of diffusion and interactions to the mobility of nuclear proteins
    • Beaudouin, J., Mora-Bermudez, F., Klee, T., Daigle, N. & Ellenberg, J. Dissecting the contribution of diffusion and interactions to the mobility of nuclear proteins. Biophys. J. 90, 1878-1894 (2006).
    • (2006) Biophys. J , vol.90 , pp. 1878-1894
    • Beaudouin, J.1    Mora-Bermudez, F.2    Klee, T.3    Daigle, N.4    Ellenberg, J.5
  • 32
    • 33746805521 scopus 로고    scopus 로고
    • Analysis of binding at a single spatially localized cluster of binding sites by fluorescence recovery after photobleaching
    • Sprague, B.L. et al. Analysis of binding at a single spatially localized cluster of binding sites by fluorescence recovery after photobleaching. Biophys. J. 91, 1169-1191 (2006).
    • (2006) Biophys. J , vol.91 , pp. 1169-1191
    • Sprague, B.L.1
  • 33
    • 18744404520 scopus 로고    scopus 로고
    • Different populations of RNA polymerase II in living mammalian cells
    • Hieda, M., Winstanley, H., Maini, P., Iborra, F.J. & Cook, P.R. Different populations of RNA polymerase II in living mammalian cells. Chromosome Res. 13, 135-144 (2005).
    • (2005) Chromosome Res , vol.13 , pp. 135-144
    • Hieda, M.1    Winstanley, H.2    Maini, P.3    Iborra, F.J.4    Cook, P.R.5
  • 34
    • 0037049641 scopus 로고    scopus 로고
    • The transcription cycle of RNA polymerase II in living cells
    • Kimura, H., Sugaya, K. & Cook, P.R. The transcription cycle of RNA polymerase II in living cells. J. Cell Biol. 159, 777-782 (2002).
    • (2002) J. Cell Biol , vol.159 , pp. 777-782
    • Kimura, H.1    Sugaya, K.2    Cook, P.R.3
  • 35
    • 0031878799 scopus 로고    scopus 로고
    • Interplay between positive and negative elongation factors: Drawing a new view of DRB
    • Yamaguchi, Y., Wada, T. & Handa, H. Interplay between positive and negative elongation factors: drawing a new view of DRB. Genes Cells 3, 9-15 (1998).
    • (1998) Genes Cells , vol.3 , pp. 9-15
    • Yamaguchi, Y.1    Wada, T.2    Handa, H.3
  • 36
    • 33746403681 scopus 로고    scopus 로고
    • Controlling the elongation phase of transcription with P-TEFb
    • Peterlin, B.M. & Price, D.H. Controlling the elongation phase of transcription with P-TEFb. Mol. Cell 23, 297-305 (2006).
    • (2006) Mol. Cell , vol.23 , pp. 297-305
    • Peterlin, B.M.1    Price, D.H.2
  • 38
    • 0038756088 scopus 로고    scopus 로고
    • Cooperation between RNA polymerase molecules in transcription elongation
    • Epshtein, V. & Nudler, E. Cooperation between RNA polymerase molecules in transcription elongation. Science 300, 801-805 (2003).
    • (2003) Science , vol.300 , pp. 801-805
    • Epshtein, V.1    Nudler, E.2
  • 39
    • 33846914726 scopus 로고    scopus 로고
    • The regulatory roles and mechanism of transcriptional pausing
    • Landick, R. The regulatory roles and mechanism of transcriptional pausing. Biochem. Soc. Trans. 34, 1062-1066 (2006).
    • (2006) Biochem. Soc. Trans , vol.34 , pp. 1062-1066
    • Landick, R.1
  • 40
    • 0034509633 scopus 로고    scopus 로고
    • Mechanism of action of camptothecin
    • Liu, L.F. et al. Mechanism of action of camptothecin. Ann. NY Acad. Sci. 922, 1-10 (2000).
    • (2000) Ann. NY Acad. Sci , vol.922 , pp. 1-10
    • Liu, L.F.1
  • 41
    • 0035200324 scopus 로고    scopus 로고
    • Transcriptional consequences of topoisomerase inhibition
    • Collins, I., Weber, A. & Levens, D. Transcriptional consequences of topoisomerase inhibition. Mol. Cell. Biol. 21, 8437-8451 (2001).
    • (2001) Mol. Cell. Biol , vol.21 , pp. 8437-8451
    • Collins, I.1    Weber, A.2    Levens, D.3
  • 42
    • 33748351186 scopus 로고    scopus 로고
    • Cotranscriptional coupling of splicing factor recruitment and precursor messenger RNA splicing in mammalian cells
    • Listerman, I., Sapra, A.K. & Neugebauer, K.M. Cotranscriptional coupling of splicing factor recruitment and precursor messenger RNA splicing in mammalian cells. Nat. Struct. Mol. Biol. 13, 815-822 (2006).
    • (2006) Nat. Struct. Mol. Biol , vol.13 , pp. 815-822
    • Listerman, I.1    Sapra, A.K.2    Neugebauer, K.M.3
  • 43
    • 0037371683 scopus 로고    scopus 로고
    • RNA polymerase II accumulation in the promoter-proximal region of the dihydrofolate reductase and gamma-actin genes
    • Cheng, C. & Sharp, P.A. RNA polymerase II accumulation in the promoter-proximal region of the dihydrofolate reductase and gamma-actin genes. Mol. Cell. Biol. 23, 1961-1967 (2003).
    • (2003) Mol. Cell. Biol , vol.23 , pp. 1961-1967
    • Cheng, C.1    Sharp, P.A.2
  • 44
    • 0023047184 scopus 로고
    • Transcriptional arrest within the first exon is a fast control mechanism in c-myc gene expression
    • Eick, D. & Bornkamm, G.W. Transcriptional arrest within the first exon is a fast control mechanism in c-myc gene expression. Nucleic Acids Res. 14, 8331-8346 (1986).
    • (1986) Nucleic Acids Res , vol.14 , pp. 8331-8346
    • Eick, D.1    Bornkamm, G.W.2
  • 45
    • 0023513563 scopus 로고
    • Anti-termination of transcription within the long terminal repeat of HIV-1 by tat gene product
    • Kao, S.Y., Calman, A.F., Luciw, P.A. & Peterlin, B.M. Anti-termination of transcription within the long terminal repeat of HIV-1 by tat gene product. Nature 330, 489-493 (1987).
    • (1987) Nature , vol.330 , pp. 489-493
    • Kao, S.Y.1    Calman, A.F.2    Luciw, P.A.3    Peterlin, B.M.4
  • 46
    • 0024282827 scopus 로고
    • The RNA polymerase II molecule at the 5′ end of the uninduced hsp70 gene of D. melanogaster is transcriptionally engaged
    • Rougvie, A.E. & Lis, J.T. The RNA polymerase II molecule at the 5′ end of the uninduced hsp70 gene of D. melanogaster is transcriptionally engaged. Cell 54, 795-804 (1988).
    • (1988) Cell , vol.54 , pp. 795-804
    • Rougvie, A.E.1    Lis, J.T.2
  • 48
    • 11144313138 scopus 로고    scopus 로고
    • A ribonucleolytic rat torpedoes RNA polymerase II
    • Luo, W. & Bentley, D. A ribonucleolytic rat torpedoes RNA polymerase II. Cell 119, 911-914 (2004).
    • (2004) Cell , vol.119 , pp. 911-914
    • Luo, W.1    Bentley, D.2
  • 49
    • 2242433534 scopus 로고    scopus 로고
    • A kinetic framework for a mammalian RNA polymerase in vivo
    • Dundr, M. et al. A kinetic framework for a mammalian RNA polymerase in vivo. Science 298, 1623-1626 (2002).
    • (2002) Science , vol.298 , pp. 1623-1626
    • Dundr, M.1
  • 50
    • 0015490858 scopus 로고
    • Visualization of RNA synthesis on chromosomes
    • Miller, O.L., Jr. & Hamkalo, B.A. Visualization of RNA synthesis on chromosomes. Int. Rev. Cytol. 33, 1-25 (1972).
    • (1972) Int. Rev. Cytol , vol.33 , pp. 1-25
    • Miller Jr., O.L.1    Hamkalo, B.A.2
  • 51
    • 0031813779 scopus 로고    scopus 로고
    • Numbers and organization of RNA polymerases, nascent transcripts, and transcription units in HeLa nuclei
    • Jackson, D.A., Iborra, F.J., Manders, E.M. & Cook, P.R. Numbers and organization of RNA polymerases, nascent transcripts, and transcription units in HeLa nuclei. Mol. Biol. Cell 9, 1523-1536 (1998).
    • (1998) Mol. Biol. Cell , vol.9 , pp. 1523-1536
    • Jackson, D.A.1    Iborra, F.J.2    Manders, E.M.3    Cook, P.R.4
  • 52
    • 33846984935 scopus 로고    scopus 로고
    • Transcriptional noise and the fidelity of initiation by RNA polymerase II
    • Struhl, K. Transcriptional noise and the fidelity of initiation by RNA polymerase II. Nat. Struct. Mol. Biol. 14, 103-105 (2007).
    • (2007) Nat. Struct. Mol. Biol , vol.14 , pp. 103-105
    • Struhl, K.1
  • 53
    • 33748304273 scopus 로고    scopus 로고
    • Dynamics of heat shock factor association with native gene loci in living cells
    • Yao, J., Munson, K.M., Webb, W.W. & Lis, J.T. Dynamics of heat shock factor association with native gene loci in living cells. Nature 442, 1050-1053 (2006).
    • (2006) Nature , vol.442 , pp. 1050-1053
    • Yao, J.1    Munson, K.M.2    Webb, W.W.3    Lis, J.T.4
  • 54
    • 33646591544 scopus 로고    scopus 로고
    • Transcriptional pulsing of a developmental gene
    • Chubb, J.R., Trcek, T., Shenoy, S.M. & Singer, R.H. Transcriptional pulsing of a developmental gene. Curr. Biol. 16, 1018-1025 (2006).
    • (2006) Curr. Biol , vol.16 , pp. 1018-1025
    • Chubb, J.R.1    Trcek, T.2    Shenoy, S.M.3    Singer, R.H.4
  • 56
  • 57
    • 0028900584 scopus 로고
    • Transcription-dependent redistribution of the large subunit of RNA polymerase II to discrete nuclear domains
    • Bregman, D.B., Du, L., van der Zee, S. & Warren, S.L. Transcription-dependent redistribution of the large subunit of RNA polymerase II to discrete nuclear domains. J. Cell Biol. 129, 287-298 (1995).
    • (1995) J. Cell Biol , vol.129 , pp. 287-298
    • Bregman, D.B.1    Du, L.2    van der Zee, S.3    Warren, S.L.4
  • 58
    • 0033571245 scopus 로고    scopus 로고
    • Transcription-independent phosphorylation of the RNA polymerase II C-terminal domain (CTD) involves ERK kinases (MEK1/2)
    • Bonnet, F., Vigneron, M., Bensaude, O. & Dubois, M.F. Transcription-independent phosphorylation of the RNA polymerase II C-terminal domain (CTD) involves ERK kinases (MEK1/2). Nucleic Acids Res. 27, 4399-4404 (1999).
    • (1999) Nucleic Acids Res , vol.27 , pp. 4399-4404
    • Bonnet, F.1    Vigneron, M.2    Bensaude, O.3    Dubois, M.F.4
  • 59
    • 0016355478 scopus 로고
    • A new look at the statistical model identification
    • Akaike, H. A new look at the statistical model identification. IEEE Trans. Automat. Contr. 19, 716-723 (1974).
    • (1974) IEEE Trans. Automat. Contr , vol.19 , pp. 716-723
    • Akaike, H.1
  • 60
    • 0000120766 scopus 로고
    • Estimating the dimension of a model
    • Schwarz, G. Estimating the dimension of a model. Ann. Stat. 6, 461-464 (1978).
    • (1978) Ann. Stat , vol.6 , pp. 461-464
    • Schwarz, G.1


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