On the right track following the nucleo-cytoplasmic path of an mRNA

Nucleus

Volumn 1, Issue 6, 2010, Pages 1-7

  Mor, Amir ^a   Ben Yishay, Rakefet ^a   Shav Tal, Yaron ^a  

^a BAR ILAN UNIVERSITY   (Israel)

Author keywords

Inter chromatin; Live cell imaging; MRNA export; RNA dynamics; Transcription

Indexed keywords

CAPSID PROTEIN; MESSENGER RNA; RIBOSOME RNA; RNA POLYMERASE II;

3' UNTRANSLATED REGION; ARTICLE; GENE EXPRESSION; NONHUMAN; NUCLEAR PORE COMPLEX; PROMOTER REGION; RNA PROCESSING; RNA SYNTHESIS; RNA TRANSCRIPTION;

EID: 78649251166     PISSN: 19491034     EISSN: 19491042     Source Type: Journal    
DOI: None     Document Type: Article

References (77)

1. de Almeida SF, Carmo-Fonseca M. The CTD role in cotranscriptional RNA processing and surveillance. FEBS Lett 2008; 582:1971-6.
2. Munoz MJ, de la Mata M, Kornblihtt AR. The carboxy terminal domain of RNA polymerase II and alternative splicing. Trends Biochem Sci 2010.
3. Neugebauer KM. On the importance of being cotranscriptional. J Cell Sci 2002; 115:3865-71.
4. Perales R, Bentley D. "Cotranscriptionality": the transcription elongation complex as a nexus for nuclear transactions. Mol Cell 2009; 36:178-91.
5. Izaurralde E, Lewis J, McGuigan C, Jankowska M, Darzynkiewicz E, Mattaj IW. A nuclear cap binding protein complex involved in pre-mRNA splicing. Cell 1994; 78:657-68.
6. Wahl MC, Will CL, Luhrmann R. The spliceosome: design principles of a dynamic RNP machine. Cell 2009; 136:701-18.
7. Le Hir H, Izaurralde E, Maquat LE, Moore MJ. The spliceosome deposits multiple proteins 20-24 nucleotides upstream of mRNA exon-exon junctions. EMBO J 2000; 19:6860-9.
8. Le Hir H, Nott A, Moore MJ. How introns influence and enhance eukaryotic gene expression. Trends Biochem Sci 2003; 28:215-20.
9. Maniatis T, Reed R. An extensive network of coupling among gene expression machines. Nature 2002; 416:499-506.
10. Dreyfuss G, Kim VN, Kataoka N. Messenger-RNAbinding proteins and the messages they carry. Nat Rev Mol Cell Biol 2002; 3:195-205.
11. Rosonina E, Kaneko S, Manley JL. Terminating the transcript: breaking up is hard to do. Genes Dev 2006; 20:1050-6.
12. Reed R, Magni K. A new view of mRNA export: separating the wheat from the chaff. Nat Cell Biol 2001; 3:201-4.
13. Mehlin H, Daneholt B, Skoglund U. Translocation of a specific premessenger ribonucleoprotein particle through the nuclear pore studied with electron microscope tomography. Cell 1992; 69:605-13.
14. Cheng H, Dufu K, Lee CS, Hsu JL, Dias A, Reed R. Human mRNA export machinery recruited to the 5' end of mRNA. Cell 2006; 127:1389-400.
15. Isken O, Maquat LE. Quality control of eukaryotic mRNA: safeguarding cells from abnormal mRNA function. Genes Dev 2007; 21:1833-56.
16. Behm-Ansmant I, Izaurralde E. Quality control of gene expression: a stepwise assembly pathway for the surveillance complex that triggers nonsense-mediated mRNA decay. Genes Dev 2006; 20:391-8.
17. Shav-Tal Y, Singer RH, Darzacq X. Imaging gene expression in single living cells. Nat Rev Mol Cell Biol 2004; 5:855-61.
18. Hager GL, McNally JG, Misteli T. Transcription dynamics. Mol Cell 2009; 35:741-53.
19. Darzacq X, Yao J, Larson DR, Causse SZ, Bosanac L, de Turris V, et al. Imaging transcription in living cells. Annu Rev Biophys 2009; 38:173-96.
20. Fusco D, Accornero N, Lavoie B, Shenoy SM, Blanchard JM, Singer RH, et al. Single mRNA molecules demonstrate probabilistic movement in living mammalian cells. Curr Biol 2003; 13:161-7.
21. Shav-Tal Y, Darzacq X, Shenoy SM, Fusco D, Janicki SM, Spector DL, et al. Dynamics of single mRNPs in nuclei of living cells. Science 2004; 304:1797-800
22. Bertrand E, Chartrand P, Schaefer M, Shenoy SM, Singer RH, Long RM. Localization of ASH1 mRNA particles in living yeast. Mol Cell 1998; 2:437-45.
23. Golding I, Cox EC. RNA dynamics in live Escherichia coli cells. Proc Natl Acad Sci USA 2004; 101:11310-5.
24. Golding I, Paulsson J, Zawilski SM, Cox EC. Realtime kinetics of gene activity in individual bacteria. Cell 2005; 123:1025-36.
25. Forrest KM, Gavis ER. Live imaging of endogenous RNA reveals a diffusion and entrapment mechanism for nanos mRNA localization in Drosophila. Curr Biol 2003; 13:1159-68.
26. Becalska AN, Gavis ER. Lighting up mRNA localization in Drosophila oogenesis. Development 2009; 136:2493-503.
27. Chubb JR, Trcek T, Shenoy SM, Singer RH. Transcriptional pulsing of a developmental gene. Curr Biol 2006; 16:1018-25.
28. Stevense M, Muramoto T, Muller I, Chubb JR. Digital nature of the immediate-early transcriptional response. Development 2010; 137:579-84.
29. Darzacq X, Shav-Tal Y, de Turris V, Brody Y, Shenoy SM, Phair RD, et al. In vivo dynamics of RNA polymerase II transcription. Nat Struct Mol Biol 2007; 14:796-806.
30. Boireau S, Maiuri P, Basyuk E, de la Mata M, Knezevich A, Pradet-Balade B, et al. The transcriptional cycle of HIV-1 in real-time and live cells. J Cell Biol 2007; 179:291-304.
31. Tsukamoto T, Hashiguchi N, Janicki SM, Tumbar T, Belmont AS, Spector DL. Visualization of gene activity in living cells. Nat Cell Biol 2000; 2:871-8.
32. Tumbar T, Sudlow G, Belmont AS. Large-scale chromatin unfolding and remodeling induced by VP16 acidic activation domain. J Cell Biol 1999; 145:1341-54.
33. Janicki SM, Tsukamoto T, Salghetti SE, Tansey WP, Sachidanandam R, Prasanth KV, et al. From silencing to gene expression; real-time analysis in single cells. Cell 2004; 116:683-98.
34. Lamond AI, Swedlow JR. RNA polymerase II transcription in living color. Nat Struct Mol Biol 2007; 14:788-90.
35. Femino AM, Fay FS, Fogarty K, Singer RH. Visualization of single RNA transcripts in situ. Science 1998; 280:585-90.
36. O'Brien T, Lis JT. Rapid changes in Drosophila transcription after an instantaneous heat shock. Mol Cell Biol 1993; 13:3456-63.
37. Tennyson CN, Klamut HJ, Worton RG. The human dystrophin gene requires 16 hours to be transcribed and is cotranscriptionally spliced. Nat Genet 1995; 9:184-90.
38. Ucker DS, Yamamoto KR. Early events in the stimulation of mammary tumor virus RNA synthesis by glucocorticoids. Novel assays of transcription rates. J Biol Chem 1984; 259:7416-20.
39. Yunger S, Rosenfeld L, Garini Y, Shav-Tal Y. Singleallele analysis of transcription kinetics in living mammalian cells. Nat Methods 2010; 7:631-3.
40. Dundr M, Hoffmann-Rohrer U, Hu Q, Grummt I, Rothblum LI, Phair RD, et al. A kinetic framework for a mammalian RNA polymerase in vivo. Science 2002; 298:1623-6.
41. Ben-Ari Y, Brody Y, Kinor N, Mor A, Tsukamoto T, Spector DL, et al. The life of an mRNA in space and time. J Cell Sci 2010; 123:1761-74.
42. Sehgal PB, Derman E, Molloy GR, Tamm I, Darnell JE. 5,6-Dichloro-1-Beta-D-ribofuranosylbenzimidazole inhibits initiation of nuclear heterogeneous RNA chains in HeLa cells. Science 1976; 194:431-3.
43. Papantonis A, Larkin JD, Wada Y, Ohta Y, Ihara S, Kodama T, et al. Active RNA polymerases: mobile or immobile molecular machines? PLoS Biol 2010; 8:1000419.
44. Wada Y, Ohta Y, Xu M, Tsutsumi S, Minami T, Inoue K, et al. A wave of nascent transcription on activated human genes. Proc Natl Acad Sci USA 2009; 106:18357-61.
45. Singh J, Padgett RA. Rates of in situ transcription and splicing in large human genes. Nat Struct Mol Biol 2009; 16:1128-33.
46. de la Mata M, Alonso CR, Kadener S, Fededa JP, Blaustein M, Pelisch F, et al. A slow RNA polymerase II affects alternative splicing in vivo. Mol Cell 2003; 12:525-32.
47. Munoz MJ, Perez Santangelo MS, Paronetto MP, de la Mata M, Pelisch F, Boireau S, et al. DNA damage regulates alternative splicing through inhibition of RNA polymerase II elongation. Cell 2009; 137:708-20.
48. Shav-Tal Y, Gruenbaum Y. Single-molecule dynamics of nuclear mRNA. F1000 Biology Reports 2009; 1:29-32.
49. Politz JC, Browne ES, Wolf DE, Pederson T. Intranuclear diffusion and hybridization state of oligonucleotides measured by fluorescence correlation spectroscopy in living cells. Proc Natl Acad Sci USA 1998; 95:6043-8.
50. Politz JC, Tuft RA, Pederson T, Singer RH. Movement of nuclear poly(A) RNA throughout the interchromatin space in living cells. Curr Biol 1999; 9:285-91.
51. Singh OP, Bjorkroth B, Masich S, Wieslander L, Daneholt B. The intranuclear movement of Balbiani ring premessenger ribonucleoprotein particles. Exp Cell Res 1999; 251:135-46.
52. Zachar Z, Kramer J, Mims IP, Bingham PM. Evidence for channeled diffusion of pre-mRNAs during nuclear RNA transport in metazoans. J Cell Biol 1993; 121:729-42.
53. Calapez A, Pereira HM, Calado A, Braga J, Rino J, Carvalho C, et al. The intranuclear mobility of messenger RNA binding proteins is ATP dependent and temperature sensitive. J Cell Biol 2002; 159:795-805.
54. Vargas DY, Raj A, Marras SA, Kramer FR, Tyagi S. Mechanism of mRNA transport in the nucleus. Proc Natl Acad Sci USA 2005; 102:17008-13.
55. Molenaar C, Abdulle A, Gena A, Tanke HJ, Dirks RW. Poly(A)+ RNAs roam the cell nucleus and pass through speckle domains in transcriptionally active and inactive cells. J Cell Biol 2004; 165:191-202.
56. Braga J, Rino J, Carmo-Fonseca M. Photobleaching microscopy reveals the dynamics of mRNA-binding proteins inside live cell nuclei. Prog Mol Subcell Biol 2004; 35:119-34.
57. Mor A, Suliman S, Ben-Yishay R, Yunger S, Brody Y, Shav-Tal Y. Dynamics of single mRNP nucleocytoplasmic transport and export through the nuclear pore in living cells. Nat Cell Biol 2010; 12:543-52.
58. Luo MJ, Reed R. Splicing is required for rapid and efficient mRNA export in metazoans. Proc Natl Acad Sci USA 1999; 96:14937-42.
59. Valencia P, Dias AP, Reed R. Splicing promotes rapid and efficient mRNA export in mammalian cells. Proc Natl Acad Sci USA 2008; 105:3386-91.
60. Lu S, Cullen BR. Analysis of the stimulatory effect of splicing on mRNA production and utilization in mammalian cells. RNA 2003; 9:618-30.
61. Lawrence JB, Singer RH, Marselle LM. Highly localized tracks of specific transcripts within interphase nuclei visualized by in situ hybridization. Cell 1989; 57:493-502.
62. Reichenzeller M, Burzlaff A, Lichter P, Herrmann H. In vivo observation of a nuclear channel-like system: evidence for a distinct interchromosomal domain compartment in interphase cells. J Struct Biol 2000; 129:175-85.
63. Blobel G. Gene gating: a hypothesis. Proc Natl Acad Sci USA 1985; 82:8527-9.
64. Fakan S. The functional architecture of the nucleus as analysed by ultrastructural cytochemistry. Histochem Cell Biol 2004; 122:83-93.
65. Cremer T, Cremer M. Chromosome territories. Cold Spring Harb Perspect Biol 2010; 2:3889.
66. Albiez H, Cremer M, Tiberi C, Vecchio L, Schermelleh L, Dittrich S, et al. Chromatin domains and the interchromatin compartment form structurally defined and functionally interacting nuclear networks. Chromosome Res 2006; 14:707-33.
67. Yang W, Gelles J, Musser SM. Imaging of single-molecule translocation through nuclear pore complexes. Proc Natl Acad Sci USA 2004; 101:12887-92.
68. Yang W, Musser SM. Nuclear import time and transport efficiency depend on importin beta concentration. J Cell Biol 2006; 174:951-61.
69. Dange T, Grunwald D, Grunwald A, Peters R, Kubitscheck U. Autonomy and robustness of translocation through the nuclear pore complex: a singlemolecule study. J Cell Biol 2008; 183:77-86.
70. Kubitscheck U, Grunwald D, Hoekstra A, Rohleder D, Kues T, Siebrasse JP, et al. Nuclear transport of single molecules: dwell times at the nuclear pore complex. J Cell Biol 2005; 168:233-43.
71. Siebrasse JP, Peters R. Rapid translocation of NTF2 through the nuclear pore of isolated nuclei and nuclear envelopes. EMBO Rep 2002; 3:887-92.
72. Ribbeck K, Gorlich D. Kinetic analysis of translocation through nuclear pore complexes. EMBO J 2001; 20:1320-30.
73. Mor A, Ben-Yishay R, Shav-Tal Y. Dynamics and kinetics of nucleo-cytoplasmic mRNA export. Wiley Interdisciplinary Reviews-RNA 2010; In press.
74. Carmo-Fonseca M. Follow that messenger: liveimaging a journey out of the nucleus. Dev Cell 2010; 18:880-2.
75. Noble KN, Wente SR. Nuclear mRNA on the move. Nat Cell Biol 2010; 12:525-7.
76. Kylberg K, Bjork P, Fomproix N, Ivarsson B, Wieslander L, Daneholt B. Exclusion of mRNPs and ribosomal particles from a thin zone beneath the nuclear envelope revealed upon inhibition of transport. Exp Cell Res 2010; 316:1028-38.
77. Carmody SR, Wente SR. mRNA nuclear export at a glance. J Cell Sci 2009; 122:1933-7.