Fluorescence fluctuation spectroscopy enables quantitative imaging of single mRNAs in living cells

Biophysical Journal

Volumn 102, Issue 12, 2012, Pages 2936-2944

  Wu, Bin ^a   Chao, Jeffrey A ^a   Singer, Robert H ^a  

^a ALBERT EINSTEIN COLLEGE OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ACTIN; CAPSID PROTEIN; MESSENGER RNA;

ANIMAL; ARTICLE; CELL LINE; CELL NUCLEUS; CELL SURVIVAL; CHEMISTRY; DIFFUSION; GENETICS; METABOLISM; METHODOLOGY; MOLECULAR IMAGING; MOUSE; PROTEIN MULTIMERIZATION; PROTEIN QUATERNARY STRUCTURE; SPECTROFLUOROMETRY;

ACTINS; ANIMALS; CAPSID PROTEINS; CELL LINE; CELL NUCLEUS; CELL SURVIVAL; DIFFUSION; MICE; MOLECULAR IMAGING; PROTEIN MULTIMERIZATION; PROTEIN STRUCTURE, QUATERNARY; RNA, MESSENGER; SPECTROMETRY, FLUORESCENCE;

EID: 84862675282     PISSN: 00063495     EISSN: 15420086     Source Type: Journal    
DOI: 10.1016/j.bpj.2012.05.017     Document Type: Article

References (41)

1. S. Tyagi Imaging intracellular RNA distribution and dynamics in living cells Nat. Methods 6 2009 331 338
2. A.J. Rodriguez, and J. Condeelis J.B. Dictenberg Imaging mRNA movement from transcription sites to translation sites Semin. Cell Dev. Biol. 18 2007 202 208
3. B.J. Cha, B.S. Koppetsch, and W.E. Theurkauf In vivo analysis of Drosophila bicoid mRNA localization reveals a novel microtubule-dependent axis specification pathway Cell 106 2001 35 46
4. K. Ainger, and D. Avossa J.H. Carson Transport and localization of exogenous myelin basic protein mRNA microinjected into oligodendrocytes J. Cell Biol. 123 1993 431 441
5. D.P. Bratu, and B.J. Cha S. Tyagi Visualizing the distribution and transport of mRNAs in living cells Proc. Natl. Acad. Sci. USA 100 2003 13308 13313
6. J.S. Paige, K.Y. Wu, and S.R. Jaffrey RNA mimics of green fluorescent protein Science 333 2011 642 646
7. E. Bertrand, and P. Chartrand R.M. Long Localization of ASH1 mRNA particles in living yeast Mol. Cell 2 1998 437 445
8. F. Lim, M. Spingola, and D.S. Peabody Altering the RNA binding specificity of a translational repressor J. Biol. Chem. 269 1994 9006 9010
9. V.L. Zimyanin, and K. Belaya D. St Johnston In vivo imaging of oskar mRNA transport reveals the mechanism of posterior localization Cell 134 2008 843 853
10. J.L. Dynes, and O. Steward Dynamics of bidirectional transport of Arc mRNA in neuronal dendrites J. Comp. Neurol. 500 2007 433 447
11. D. Grünwald, and R.H. Singer In vivo imaging of labelled endogenous β-actin mRNA during nucleocytoplasmic transport Nature 467 2010 604 607
12. J.R. Chubb, and T. Trcek R.H. Singer Transcriptional pulsing of a developmental gene Curr. Biol. 16 2006 1018 1025
13. I. Golding, and J. Paulsson E.C. Cox Real-time kinetics of gene activity in individual bacteria Cell 123 2005 1025 1036
14. T. Lionnet, and K. Czaplinski R.H. Singer A transgenic mouse for in vivo detection of endogenous labeled mRNA Nat. Methods 8 2011 165 170
15. A.S. Brodsky, and P.A. Silver Pre-mRNA processing factors are required for nuclear export RNA 6 2000 1737 1749
16. S. Lange, and Y. Katayama R.P. Jansen Simultaneous transport of different localized mRNA species revealed by live-cell imaging Traffic 9 2008 1256 1267
17. J.A. Chao, and Y. Patskovsky R.H. Singer Structural basis for the coevolution of a viral RNA-protein complex Nat. Struct. Mol. Biol. 15 2008 103 105
18. N. Daigle, and J. Ellenberg λN-GFP: an RNA reporter system for live-cell imaging Nat. Methods 4 2007 633 636
19. D.R. Larson, and D. Zenklusen R.H. Singer Real-time observation of transcription initiation and elongation on an endogenous yeast gene Science 332 2011 475 478
20. D. Fusco, and N. Accornero E. Bertrand Single mRNA molecules demonstrate probabilistic movement in living mammalian cells Curr. Biol. 13 2003 161 167
21. D. Magde, E. Elson, and W.W. Webb Thermodynamics fluctuations in a reacting system: measurement by fluorescence correlation spectroscopy Phys. Rev. Lett. 29 1972 705 708
22. K.M. Berland, P.T. So, and E. Gratton Two-photon fluorescence correlation spectroscopy: method and application to the intracellular environment Biophys. J. 68 1995 694 701
23. P. Dittrich, and F. Malvezzi-Campeggi P. Schwille Accessing molecular dynamics in cells by fluorescence correlation spectroscopy Biol. Chem. 382 2001 491 494
24. U. Meseth, and T. Wohland H. Vogel Resolution of fluorescence correlation measurements Biophys. J. 76 1999 1619 1631
25. M.A. Digman, and P.W. Wiseman E. Gratton Stoichiometry of molecular complexes at adhesions in living cells Proc. Natl. Acad. Sci. USA 106 2009 2170 2175
26. Y. Chen, L.N. Wei, and J.D. Müller Probing protein oligomerization in living cells with fluorescence fluctuation spectroscopy Proc. Natl. Acad. Sci. USA 100 2003 15492 15497
27. S. Saffarian, and Y. Li L.J. Pike Oligomerization of the EGF receptor investigated by live cell fluorescence intensity distribution analysis Biophys. J. 93 2007 1021 1031
28. B. Wu, Y. Chen, and J.D. Müller Heterospecies partition analysis reveals binding curve and stoichiometry of protein interactions in living cells Proc. Natl. Acad. Sci. USA 107 2010 4117 4122
29. Y. Chen, and J.D. Müller Determining the stoichiometry of protein heterocomplexes in living cells with fluorescence fluctuation spectroscopy Proc. Natl. Acad. Sci. USA 104 2007 3147 3152
30. B. Wu, and J.D. Müller Time-integrated fluorescence cumulant analysis in fluorescence fluctuation spectroscopy Biophys. J. 89 2005 2721 2735
31. A. Sanchez-Andres, Y. Chen, and J.D. Müller Molecular brightness determined from a generalized form of Mandel's Q-parameter Biophys. J. 89 2005 3531 3547
32. R.E. Thompson, D.R. Larson, and W.W. Webb Precise nanometer localization analysis for individual fluorescent probes Biophys. J. 82 2002 2775 2783
33. K. Valegård, and L. Liljas T. Unge The three-dimensional structure of the bacterial virus MS2 Nature 345 1990 36 41
34. C.Z. Ni, and R. Syed K.R. Ely Crystal structure of the MS2 coat protein dimer: implications for RNA binding and virus assembly Structure 3 1995 255 263
35. D.S. Peabody, and F. Lim Complementation of RNA binding site mutations in MS2 coat protein heterodimers Nucleic Acids Res. 24 1996 2352 2359
36. I. Golding, and E.C. Cox RNA dynamics in live Escherichia coli cells Proc. Natl. Acad. Sci. USA 101 2004 11310 11315
37. J.M. Levsky, and S.M. Shenoy R.H. Singer Single-cell gene expression profiling Science 297 2002 836 840
38. D. Schneider, C. Tuerk, and L. Gold Selection of high affinity RNA ligands to the bacteriophage R17 coat protein J. Mol. Biol. 228 1992 862 869
39. O. Rackham, and C.M. Brown Visualization of RNA-protein interactions in living cells: FMRP and IMP1 interact on mRNAs EMBO J. 23 2004 3346 3355
40. Y. Chen, and B. Wu J.D. Mueller Fluorescence fluctuation spectroscopy on viral-like particles reveals variable gag stoichiometry Biophys. J. 96 2009 1961 1969
41. Y. Shav-Tal, and X. Darzacq R.H. Singer Dynamics of single mRNPs in nuclei of living cells Science 304 2004 1797 1800