The transcription cycle of RNA polymerase II in living cells

Journal of Cell Biology

Volumn 159, Issue 5, 2002, Pages 777-782

  Kimura, Hiroshi ^a,b   Sugaya, Kimihiko ^a,c   Cook, Peter R ^a  

^a UNIVERSITY OF OXFORD   (United Kingdom)

^b TOKYO MEDICAL AND DENTAL UNIVERSITY   (Japan)

^c NATIONAL INSTITUTE OF RADIOLOGICAL SCIENCES   (Japan)

Author keywords

Actinomycin D; DRB; Green fluorescent protein; Kinetics; Photobleaching

Indexed keywords

DACTINOMYCIN; GREEN FLUORESCENT PROTEIN; RNA POLYMERASE II;

ANIMAL CELL; ARTICLE; CATALYSIS; CELL COMPARTMENTALIZATION; CHINESE HAMSTER; COMPLEX FORMATION; DIFFUSION COEFFICIENT; DNA TEMPLATE; ENZYME SUBUNIT; MOUSE; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN DOMAIN; PROTEIN LOCALIZATION; RNA TRANSCRIPTION; TRANSCRIPTION REGULATION;

ANIMALS; CELL LINE; CELL NUCLEUS; CELLS, CULTURED; CRICETINAE; DACTINOMYCIN; DICHLORORIBOFURANOSYLBENZIMIDAZOLE; GENE EXPRESSION REGULATION, ENZYMOLOGIC; GREEN FLUORESCENT PROTEINS; KINETICS; LUMINESCENT PROTEINS; MODELS, GENETIC; MUTAGENESIS; MUTATION; NUCLEIC ACID SYNTHESIS INHIBITORS; PERIODICITY; PHOTOBLEACHING; RNA POLYMERASE II; TEMPERATURE; TIME FACTORS; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC;

ANIMALIA; CRICETINAE; CRICETULUS GRISEUS; EUKARYOTA;

EID: 0037049641     PISSN: 00219525     EISSN: None     Source Type: Journal    
DOI: 10.1083/jcb.200206019     Document Type: Article

References (41)

1. Beyer, A.L., A.H. Bouton, L.D. Hodge, and O.L. Miller. 1981. Visualization of the major late R strand transcription unit of adenovirus setotype 2. J. Mol. Biol. 147:269-295.
2. Brown, D.D. 1984. The role of stable complexes that repress and activate eucaryotic genes. Cell. 37:359-365.
3. Chen, D., C.S. Hinkley, R.W. Henry, and S. Huang. 2002. TBP dynamics in living human cells: Sonstitutive association of TBP with mitotic chromosomes. Mol. Biol. Cell. 13:276-284.
4. Cook, P.R. 1999. The organization of replication and transcription. Science. 284: 1790-1795.
5. Dahmus, M.E. 1996. Reversible phosphorylation of the C-terminal domain of RNA polymerase II. J. Biol. Chem. 271:19009-19012.
6. Dye, M.J., and N.J. Proudfoot. 2001. Multiple transcript cleavage precedes polymerase release in termination by RNA polymerase II. Cell. 105:669-681.
7. Ellenberg, J., and J. Lippincott-Schwartz. 1999. Dynamics and mobility of nuclear envelope proteins in interphase and mitotic cells revealed by green fluorescent protein chimeras. Methods. 19:362-372.
8. Fakan, S., G. Leser, and T.E. Martin. 1986. Immunoelectron microscope visualization of nuclear ribonucleoprotein antigens spread within transcription complexes. J. Cell Biol. 103:1153-1157.
9. Femino, A.M., F.S. Fay, K. Fogarty, and R.H. Singer. 1998. Visualization of single RNA transcripts in situ. Science. 280:585-590.
10. Houtsmuller, A.B., and W. Vermeulen. 2001. Macromolecular dynamics in living cell nuclei revealed by fluorescence redistribution after photobleaching. Histochem. Cell Biol. 115:13-21.
11. Houtsmuller, A.B., S. Rademakers, A.L. Nigg, D. Hoogstraten, J.H. Hoeijmakers, and W. Vermeulen. 1999. Action of DNA repair endonuclease ERCC1/ XPF in living cells. Science. 284:958-961.
12. International Human Genome Sequencing Consortium. 2001. Initial sequencing and analysis of the human genome. Nature. 409:860-921.
13. Jackson, D.A., and P.R. Cook. 1985. A general method for preparing chromatin containing intact DNA. EMBO J. 4:913-918.
14. Jackson, D.A., F.J. Iborra, E.M.M. Manders, and P.R. Cook. 1998. Numbers and organization of RNA polymerases, nascent transcripts and transcription units in HeLa nuclei. Mol. Biol. Cell. 9:1523-1536.
15. Jackson, D.A., A. Pombo, and F.J. Iborra. 2000. The balance sheet for transcription: An analysis of nuclear RNA metabolism in mammalian cells. FASEB J. 14:242-254.
16. Kimura, H., and P.R. Cook. 2001. Kinetics of core histones in living cells: Little exchange of H3 and H4 and some rapid exchange of H2B. J. Cell Biol. 153: 1341-1353.
17. Kimura, H., Y. Tao, R.G. Roeder, and P.R. Cook. 1999. Quantitation of RNA polymerase II and its transcription factors in an HeLa cell: Little soluble holoenzyme but significant amounts of polymerases attached to the nuclear substructure. Mol. Cell. Biol. 19:5383-5392.
18. Komarnitsky, P., E.J. Cho, and S. Buratowski. 2000. Different phosphorylated forms of RNA polymerase II and associated mRNA processing factors during transcription. Genes Dev. 14:2452-2460.
19. Kovelman, R., and R.G. Roeder. 1990. Sarkosyl defines three intermediate steps in transcription initiation by RNA polymerase III: Application to stimulation of transcription by E1A. Genes Dev. 4:646-658.
20. Laird, C.D., and W.Y. Chooi. 1976. Morphology of transcription units in Drosophila melanogaster. Chromosoma. 58:193-218.
21. Lai, J.-S., and W. Herr. 1992. Ethidium bromide provides a simple tool for identifying genuine DNA-independent protein associations. Proc. Natl. Acad. Sci. USA. 89:6958-6962.
22. Lee, T.I., and R.A. Young. 2000. Transcription of eukaryotic protein-coding genes. Annu. Rev. Genet. 34:77-137.
23. Lis, J., and C. Wu. 1993. Protein traffic on the heat shock promoter: Parking, stalling, and trucking along. Cell. 74:1-4.
24. McCracken, S., N. Fong, K. Yankulov, S. Ballantyne, G. Pan, J. Greenblatt, S.D. Patterson, M. Wickens, and D.L. Bentley. 1997. The C-terminal domain of RNA polymerase II couples mRNA processing to transcription. Nature 385: 357-361.
25. Miller, O.L. 1981. The nucleolus, chromosomes, and visualization of genetic activity. J. Cell Biol. 91:15s-27s.
26. Misteli, T. 2001. Protein dynamics: Implications for nuclear architecture and gene expression. Science. 291:843-847.
27. O'Brien, T., and J.T. Lis. 1991. RNA polymerase II pauses at the 5′ end of the transcriptionally induced Drosophila hsp70 gene. Mol. Cell Biol. 11:5285-5290.
28. Orphanides, G., T. Lagrange, and D. Reinberg. 1996. The general transcription factors of RNA polymetase II. Genes Dev. 10:2657-2683.
29. Osheim, Y.N., O.L. Miller, and A.L. Beyer. 1985. RNP particles at splice junction sequences on Drosophila chorion transcripts. Cell. 43:143-151.
30. Phair, R.D., and T. Misteli. 2000. High mobility of proteins in the mammalian cell nucleus. Nature. 404:604-609.
31. Phair, R.D., and T. Misteli. 2001. Kinetic modelling approaches to in vivo imaging. Nat. Rev. Mol. Cell Biol. 2:898-907.
32. Pombo, A., D.A. Jackson, M. Hollinshead, Z. Wang, R.G. Roeder, and P.R. Cook. 1999. Regional specialization in human nuclei: Visualization of discrete sites of transcription by RNA polymerase III. EMBO J. 18:2241-2253.
33. Rougvie, A.E., and J.T. Lis. 1990. Postinitiation transcriptional control in Drosophila melanogaster. Mol. Cell. Biol. 10:6041-6045.
34. Sugaya, K., M. Vigneron, and P.R. Cook. 2000. Mammalian cell lines expressing functional RNA polymerase II tagged with the green fluorescent protein. J. Cell Sci. 113:2679-2683.
35. Szentirmay, M.N., and M. Sawadogo. 1994. Sarkosyl block of transcription reinitiation by RNA polymerase II as visualized by the colliding polymerases reinitiation assay. Nucleic Acids Res. 22:5341-5346.
36. Tsien, R.Y. 1998. The green fluorescent protein. Annu. Rev. Biochem. 67:509-544.
37. White, J., and E. Stelzer. 1999. Photobleaching GFP reveals protein dynamics inside live cells. Trends Cell Biol. 9:61-65.
38. Wijgerde, M., F. Grosveld, and P. Fraser. 1995. Transcription complex stability and chromatin dynamics in vivo. Nature. 377:209-213.
39. Wolgemuth, D.J., and M.T. Hsu. 1981. Visualization of nascent RNA transcripts and simultaneous transcription and replication in viral nucleoprotein complexes from adenovirus 2-infected HeLa cells. J. Mol. Biol. 147:247-268.
40. Yamaguchi, Y., T. Wada, and H. Handa. 1998. Interplay between positive and negative elongation factors: Drawing a new view of DRB. Genes Cells. 3:9-15.
41. Yudkovsky, N., J.A. Ranish, and S. Hahn. 2000. A transcription reinitiation intermediate that is stabilized by activator. Nature. 408:225-229.