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Localizing Protein–Protein Interactions in Living Cells Using Fluorescence Lifetime Imaging Microscopy

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Advanced Fluorescence Microscopy

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1251))

Abstract

In the past decade, advances in fluorescence lifetime imaging have extensively applied in the life sciences, from fundamental biological investigations to advanced clinical diagnosis. Fluorescence lifetime imaging microscopy (FLIM) is now routinely used in the biological sciences to monitor dynamic signaling events inside living cells, e.g., Protein–Protein interactions. In this chapter, we describe the calibration of both time-correlated single-photon counting (TCSPC) and frequency domain (FD) FLIM systems and the acquisition and analysis of FLIM-FRET data for investigating Protein–Protein interactions in living cells.

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References

  1. Venetta BD (1959) Microscope phase fluorometer for determining the fluorescence lifetimes of fluorochromes. Rev Sci Instrum 30:450–457

    Article  CAS  Google Scholar 

  2. Biener E, Charlier M, Ramanujan VK et al (2005) Quantitative FRET imaging of leptin receptor oligomerization kinetics in single cells. Biol Cell 97:905–919

    Article  CAS  PubMed  Google Scholar 

  3. Gadella TWJ (2009) FRET and FLIM techniques. In: Pillai S, van der Vliet PC (eds) Laboratory techniques in biochemistry and molecular biology. Elsevier, Oxford, UK, p 534

    Google Scholar 

  4. Periasamy A, Clegg RM (2009) FLIM microscopy in biology and medicine. CRC Press, London

    Google Scholar 

  5. Periasamy A, Wodnicki P, Wang XF et al (1996) Time-resolved fluorescence lifetime imaging microscopy using a picosecond pulsed tunable dye laser system. Rev Sci Instrum 67:3722–3731

    Article  CAS  Google Scholar 

  6. Agronskaia AV, Tertoolen L, Gerritsen HC (2003) High frame rate fluorescence lifetime imaging. J Phys D 36:1655–1662

    Article  Google Scholar 

  7. Agronskaia AV, Tertoolen L, Gerritsen HC (2004) Fast fluorescence lifetime imaging of calcium in living cells. J Biomed Opt 9:1230–1237

    Article  CAS  PubMed  Google Scholar 

  8. Ushakov DS, Caorsi V, Ibanez-Garcia D et al (2011) Response of rigor cross-bridges to stretch detected by fluorescence lifetime imaging microscopy of myosin essential light chain in skeletal muscle fibers. J Biol Chem 286:842–850

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  9. Berezovska O, Lleo A, Herl LD et al (2005) Familial alzheimer’s disease presenilin 1 mutations cause alterations in the conformation of presenilin and interactions with amyloid precursor protein. J Neurosci 25:3009–3017

    Article  CAS  PubMed  Google Scholar 

  10. Petrasek Z, Eckert HJ, Kemnitz K (2009) Wide-field photon counting fluorescence lifetime imaging microscopy: application to photosynthesizing systems. Photosynth Res 102:157–168

    Article  CAS  PubMed  Google Scholar 

  11. Lakowicz JR (2006) Principles of fluorescence spectroscopy. Springer, New York

    Book  Google Scholar 

  12. Huang S, Heikal AA, Webb WW (2002) Two-photon fluorescence spectroscopy and microscopy of NAD(P)H and flavoprotein. Biophys J 82:2811–2825

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  13. Bird DK, Yan L, Vrotsos KM et al (2005) Metabolic mapping of MCF10A human breast cells via multiphoton fluorescence lifetime imaging of the coenzyme NADH. Cancer Res 65:8766–8773

    Article  CAS  PubMed  Google Scholar 

  14. Skala MC, Riching KM, Gendron-Fitzpatrick A et al (2007) In vivo multiphoton microscopy of NADH and FAD redox states, fluorescence lifetimes, and cellular morphology in precancerous epithelia. Proc Natl Acad Sci U S A 104:19494–19499

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  15. Galletly NP, McGinty J, Dunsby C et al (2008) Fluorescence lifetime imaging distinguishes basal cell carcinoma from surrounding uninvolved skin. Br J Dermatol 159:152–161

    Article  CAS  PubMed  Google Scholar 

  16. Förster T (1946) Energy transport and fluorescence [in German]. Naturwissenschaften 6:166–175

    Article  Google Scholar 

  17. Förster T (1948) Zwischenmolekulare energiewanderung und fluoreszenz. Annalen Der Physik 437:55–75

    Article  Google Scholar 

  18. Förster T (1965) Delocalized excitation and excitation transfer. In: Sinanoglu O (ed) Modern quantum chemistry. Academic Press Inc., New York, pp 93–137

    Google Scholar 

  19. Clegg RM (1996) Fluorescence resonance energy transfer. In: Wang XF, Herman B (eds) Fluorescence imaging spectroscopy and microscopy. Wiley, New York, pp 179–251

    Google Scholar 

  20. Jares-Erijman EA, Jovin TM (2003) FRET imaging. Nat Biotechnol 21:1387–1395

    Article  CAS  PubMed  Google Scholar 

  21. Sekar RB, Periasamy A (2003) Fluorescence resonance energy transfer (FRET) microscopy imaging of live cell protein localizations. J Cell Biol 160:629–633

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  22. Vogel SS, Thaler C, Koushik SV (2006) Fanciful FRET. Sci STKE re2

    Google Scholar 

  23. Piston DW, Kremers GJ (2007) Fluorescent protein FRET: the good, the bad and the ugly. Trends Biochem Sci 32:407–414

    Article  CAS  PubMed  Google Scholar 

  24. Sun Y, Wallrabe H, Seo SA et al (2011) FRET microscopy in 2010: the legacy of theodor forster on the 100th anniversary of his birth. Chem Phys Chem 12:462–474

    CAS  PubMed Central  PubMed  Google Scholar 

  25. Wouters FS, Bastiaens PIH (1999) Fluorescence lifetime imaging of receptor tyrosine kinase activity in cells. Curr Biol 9:1127–1130

    Article  CAS  PubMed  Google Scholar 

  26. Verveer PJ, Wouters FS, Reynolds AR et al (2000) Quantitative imaging of lateral ErbB1 receptor signal propagation in the plasma membrane. Science 290:1567–1570

    Article  CAS  PubMed  Google Scholar 

  27. Elangovan M, Day RN, Periasamy A (2002) Nanosecond fluorescence resonance energy transfer-fluorescence lifetime imaging microscopy to localize the protein interactions in a single living cell. J Microsc 205:3–14

    Article  CAS  PubMed  Google Scholar 

  28. Chen Y, Mills JD, Periasamy A (2003) Protein localization in living cells and tissues using FRET and FLIM. Differentiation 71:528–541

    Article  CAS  PubMed  Google Scholar 

  29. Krishnan RV, Masuda A, Centonze VE et al (2003) Quantitative imaging of protein–protein interactions by multiphoton fluorescence lifetime imaging microscopy using a streak camera. J Biomed Opt 8:362–367

    Article  CAS  PubMed  Google Scholar 

  30. Chen Y, Periasamy A (2004) Characterization of two-photon excitation fluorescence lifetime imaging microscopy for protein localization. Microsc Res Tech 63:72–80

    Article  CAS  PubMed  Google Scholar 

  31. Biskup C, Zimmer T, Benndorf K (2004) FRET between cardiac na + channel subunits measured with a confocal microscope and a streak camera. Nat Biotechnol 22:220–224

    Article  CAS  PubMed  Google Scholar 

  32. Wallrabe H, Periasamy A (2005) Imaging protein molecules using FRET and FLIM microscopy. Curr Opin Biotechnol 16:19–27

    Article  CAS  PubMed  Google Scholar 

  33. Demarco IA, Periasamy A, Booker CF et al (2006) Monitoring dynamic protein interactions with photoquenching FRET. Nat Methods 3:519–524

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  34. Biskup C, Zimmer L, Kelbauskas T et al (2007) Multi-dimensional fluorescence lifetime and FRET measurements. Microsc Res Tech 70:442–451

    Article  CAS  PubMed  Google Scholar 

  35. Li Q, Seeger S (2007) Label-free detection of protein interactions using deep UV fluorescence lifetime microscopy. Anal Biochem 367:104–110

    Article  CAS  PubMed  Google Scholar 

  36. Li H, Li HF, Felder RA et al (2008) Rab4 and Rab11 coordinately regulate the recycling of angiotensin II type I receptor as demonstrated by fluorescence resonance energy transfer microscopy. J Biomed Opt 13:031206

    Article  PubMed Central  PubMed  Google Scholar 

  37. Murakoshi H, Lee SJ, Yasuda R (2008) Highly sensitive and quantitative FRET-FLIM imaging in single dendritic spines using improved non-radiative YFP. Brain Cell Biol 36:31–42

    Article  PubMed Central  PubMed  Google Scholar 

  38. Sun Y, Wallrabe H, Booker CF et al (2010) Three-color spectral FRET microscopy localizes three interacting proteins in living cells. Biophys J 99:1274–1283

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  39. Li H, Yu P, Sun Y et al (2010) Actin cytoskeleton-dependent rab GTPase-regulated angiotensin type I receptor lysosomal degradation studied by fluorescence lifetime imaging microscopy. J Biomed Opt 15:056003

    Article  PubMed Central  PubMed  Google Scholar 

  40. Boutant E, Didier P, Niehl A et al (2010) Fluorescent protein recruitment assay for demonstration and analysis of in vivo protein interactions in plant cells and its application to tobacco mosaic virus movement protein. Plant J 62:171–177

    Article  CAS  PubMed  Google Scholar 

  41. Bu W, Lim KB, Yu YH et al (2010) Cdc42 interaction with N-WASP and toca-1 regulates membrane tubulation, vesicle formation and vesicle motility: Implications for endocytosis. PLoS One 5:e12153

    Article  PubMed Central  PubMed  Google Scholar 

  42. Martin-Villar E, Fernandez-Munoz B, Parsons M et al (2010) Podoplanin associates with CD44 to promote directional cell migration. Mol Biol Cell 21:4387–4399

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  43. Jones PB, Adams KW, Rozkalne A et al (2011) Apolipoprotein E: isoform specific differences in tertiary structure and interaction with amyloid-beta in human alzheimer brain. PLoS One 6:e14586

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  44. Timpson P, McGhee EJ, Morton JP et al (2011) Spatial regulation of RhoA activity during pancreatic cancer cell invasion driven by mutant p53. Cancer Res 71:747–757

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  45. Kumar S, Alibhai D, Margineanu A et al (2011) FLIM FRET technology for drug discovery: automated multiwell-plate high-content analysis, multiplexed readouts and application in situ. Chem Phys Chem 12:609–626

    CAS  PubMed Central  PubMed  Google Scholar 

  46. Sun Y, Day RN, Periasamy A (2011) Investigating protein–protein interactions in living cells using fluorescence lifetime imaging microscopy. Nat Protoc 6:1324–1340

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  47. Becker W (2005) Advanced time-correlated single photon counting techniques. Springer, Berlin

    Book  Google Scholar 

  48. Gerritsen HC, Asselbergs MA, Agronskaia AV et al (2002) Fluorescence lifetime imaging in scanning microscopes: acquisition speed, photon economy and lifetime resolution. J Microsc 206:218–224

    Article  CAS  PubMed  Google Scholar 

  49. Becker W, Bergmann A, Hink MA et al (2004) Fluorescence lifetime imaging by time-correlated single-photon counting. Microsc Res Tech 63:58–66

    Article  CAS  PubMed  Google Scholar 

  50. Becker W, Bergmann A, Biskup C (2007) Multispectral fluorescence lifetime imaging by TCSPC. Microsc Res Tech 70:403–409

    Article  CAS  PubMed  Google Scholar 

  51. Elangovan M, Wallrabe H, Chen Y et al (2003) Characterization of one- and two-photon excitation fluorescence resonance energy transfer microscopy. Methods 29:58–73

    Article  CAS  PubMed  Google Scholar 

  52. Talbot CB, McGinty J, Grant DM et al (2008) High speed unsupervised fluorescence lifetime imaging confocal multiwell plate reader for high content analysis. J Biophotonics 1:514–521

    Article  PubMed  Google Scholar 

  53. Krishnan RV, Saitoh H, Terada H et al (2003) Development of a multiphoton fluorescence lifetime imaging microscopy system using a streak camera. Rev Sci Instrum 74:2714–2721

    Article  CAS  Google Scholar 

  54. Colyer RA, Lee C, Gratton E (2008) A novel fluorescence lifetime imaging system that optimizes photon efficiency. Microsc Res Tech 71:201–213

    Article  PubMed  Google Scholar 

  55. Gadella TWJ Jr, Jovin TM, Clegg RM (1993) Fluorescence lifetime imaging microscopy (FLIM): Spatial resolution of microstructures on the nanosecond time scale. Biophys Chem 48:221–239

    Article  CAS  Google Scholar 

  56. Buranachai C, Kamiyama D, Chiba A et al (2008) Rapid frequency-domain FLIM spinning disk confocal microscope: lifetime resolution, image improvement and wavelet analysis. J Fluoresc 18:929–942

    Article  CAS  PubMed  Google Scholar 

  57. Chen YC, Clegg RM (2011) Spectral resolution in conjunction with polar plots improves the accuracy and reliability of FLIM measurements and estimates of FRET efficiency. J Microsc 244:21–37

    Article  CAS  PubMed  Google Scholar 

  58. Goedhart J, van Weeren L, Hink MA et al (2010) Bright cyan fluorescent protein variants identified by fluorescence lifetime screening. Nat Methods 7:137–139

    Article  CAS  PubMed  Google Scholar 

  59. Periasamy A, Skoglund P, Noakes C et al (1999) An evaluation of two-photon excitation versus confocal and digital deconvolution fluorescence microscopy imaging in xenopus morphogenesis. Microsc Res Tech 47:172–181

    Article  CAS  PubMed  Google Scholar 

  60. Verveer PJ, Squire A, Bastiaens PIH (2000) Global analysis of fluorescence lifetime imaging microscopy data. Biophys J 78:2127–2137

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  61. Verveer PJ, Bastiaens PIH (2003) Evaluation of global analysis algorithms for single frequency fluorescence lifetime imaging microscopy data. J Microsc 209:1–7

    Article  CAS  PubMed  Google Scholar 

  62. Pelet S, Previte MJ, Laiho LH et al (2004) A fast global fitting algorithm for fluorescence lifetime imaging microscopy based on image segmentation. Biophys J 87:2807–2817

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  63. Grecco HE, Roda-Navarro P, Verveer PJ (2009) Global analysis of time correlated single photon counting FRET-FLIM data. Opt Express 17:6493–6508

    Article  CAS  PubMed  Google Scholar 

  64. Gryczynski I, Bharill S, Luchowski R et al (2009) Nonlinear curve-fitting methods for time-resolved data analysis. In: Periasamy A, Clegg RM (eds) FLIM microscopy in biology and medicine. Chapman and Hall/CRC, Boca Raton, pp 341–369

    Google Scholar 

  65. Redford GI, Clegg RM (2005) Polar plot representation for frequency-domain analysis of fluorescence lifetimes. J Fluoresc 15:805–815

    Article  CAS  PubMed  Google Scholar 

  66. Clayton AH, Hanley QS, Verveer PJ (2004) Graphical representation and multicomponent analysis of single-frequency fluorescence lifetime imaging microscopy data. J Microsc 213:1–5

    Article  CAS  PubMed  Google Scholar 

  67. Hanley QS, Clayton AH (2005) AB-plot assisted determination of fluorophore mixtures in a fluorescence lifetime microscope using spectra or quenchers. J Microsc 218:62–67

    Article  CAS  PubMed  Google Scholar 

  68. Digman MA, Caiolfa VRM, Zamai VR et al (2008) The phasor approach to fluorescence lifetime imaging analysis. Biophys J 94:L14–L16

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  69. Stringari C, Cinquin A, Cinquin O et al (2011) Phasor approach to fluorescence lifetime microscopy distinguishes different metabolic states of germ cells in a live tissue. Proc Natl Acad Sci U S A 108:13582–13587

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  70. Sun Y, Booker CF, Kumari S et al (2009) Characterization of an orange acceptor fluorescent protein for sensitized spectral fluorescence resonance energy transfer microscopy using a white-light laser. J Biomed Opt 14:054009

    Article  PubMed Central  PubMed  Google Scholar 

  71. Koushik SV, Blank PS, Vogel SS (2009) Anomalous surplus energy transfer observed with multiple FRET acceptors. PLoS One 4:e8031

    Article  PubMed Central  PubMed  Google Scholar 

  72. Boens N, Qin W, Basaric N et al (2007) Fluorescence lifetime standards for time and frequency domain fluorescence spectroscopy. Anal Chem 79:2137–2149

    Article  CAS  PubMed  Google Scholar 

  73. Cramer LE, Spears KG (1978) Hydrogen bond strengths from solvent-dependent lifetimes of rose bengal dye. J Am Chem Soc 100:221–227

    Article  CAS  Google Scholar 

  74. Thaler C, Koushik SV, Blank PS et al (2005) Quantitative multiphoton spectral imaging and its use for measuring resonance energy transfer. Biophys J 89:2736–2749

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  75. Koushik SV, Chen H, Thaler C et al (2006) Cerulean, venus, and VenusY67C FRET reference standards. Biophys J 91:L99–L101

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  76. Rizzo MA, Springer GH, Granada B et al (2004) An improved cyan fluorescent protein variant useful for FRET. Nat Biotechnol 22:445–449

    Article  CAS  PubMed  Google Scholar 

  77. Nagai T, Ibata K, Park ES et al (2002) A variant of yellow fluorescent protein with fast and efficient maturation for cell-biological applications. Nat Biotechnol 20:87–90

    Article  CAS  PubMed  Google Scholar 

  78. Tang QQ, Lane MD (2000) Role of C/EBP homologous protein (CHOP-10) in the programmed activation of CCAAT/enhancer-binding protein-beta during adipogenesis. Proc Natl Acad Sci U S A 97:12446–12450

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  79. Tang QQ, Lane MD (1999) Activation and centromeric localization of CCAAT/enhancer-binding proteins during the mitotic clonal expansion of adipocyte differentiation. Genes Dev 13:2231–2241

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  80. Day RN, Voss TC, Enwright JF 3rd et al (2003) Imaging the localized protein interactions between pit-1 and the CCAAT/enhancer binding protein alpha in the living pituitary cell nucleus. Mol Endocrinol 17:333–345

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  81. Buranachai C, Tong B, Clegg R et al (2009) General concerns of FLIM data representation and analysis. In: Periasamy A, Clegg RM (eds) FLIM microscopy in biology and medicine. Chapman and Hall/CRC, Boca Raton, pp 323–340

    Google Scholar 

  82. Sun Y, Periasamy A (2010) Additional correction for energy transfer efficiency calculation in filter-based forster resonance energy transfer microscopy for more accurate results. J Biomed Opt 15:020513

    Article  PubMed Central  PubMed  Google Scholar 

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Acknowledgments

The authors acknowledge funding from the University of Virginia, National Heart, Lung, and Blood Institute (NHLBI) PO1HL101871 and National Center for Research Resources NCRR-NIH RR027409. The authors thank Ms. Kay Christopher (Biology, University of Virginia) for preparing the samples, Dr. Steven Vogel (NIH/NIAAA) for providing the FRET-standard constructs, and Dr. Richard Day (Indiana University School of Medicine) for providing the C/EBPα-bZip constructs.

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Correspondence to Ammasi Periasamy .

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Sun, Y., Periasamy, A. (2015). Localizing Protein–Protein Interactions in Living Cells Using Fluorescence Lifetime Imaging Microscopy. In: Verveer, P. (eds) Advanced Fluorescence Microscopy. Methods in Molecular Biology, vol 1251. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-2080-8_6

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  • DOI: https://doi.org/10.1007/978-1-4939-2080-8_6

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