Super-resolution imaging in live cells

Developmental Biology

Volumn 401, Issue 1, 2015, Pages 175-181

  Cox, Susan ^a  

^a KING'S COLLEGE LONDON   (United Kingdom)

Author keywords

Localisation microscopy; Stimulated emission depletion microscopy; Structured illumination microscopy; Super resolution microscopy

Indexed keywords

ARTICLE; ARTIFACT; IMAGE ANALYSIS; IMAGE PROCESSING; IMAGE RECONSTRUCTION; IMAGING; IMAGING SYSTEM; LOCALISATION MICROSCOPY; MICROSCOPY; PRIORITY JOURNAL; STIMULATED EMISSION DEPLETION MICROSCOPY; STRUCTURED ILLUMINATION MICROSCOPY; SUPER RESOLUTION OPTICAL FLUCTUATION IMAGING; CELLS; FLUORESCENCE MICROSCOPY; PROCEDURES; SINGLE CELL ANALYSIS; ULTRASTRUCTURE;

CELLS; MICROSCOPY, FLUORESCENCE; SINGLE-CELL ANALYSIS;

EID: 84927970389     PISSN: 00121606     EISSN: 1095564X     Source Type: Journal    
DOI: 10.1016/j.ydbio.2014.11.025     Document Type: Review

References (79)

1. Baddeley D., Batram C., Weiland Y., Cremer C., Birk U.J. Nanostructure analysis using spatially modulated illumination microscopy. Nat. Protoc. 2007, 2:2640-2646.
2. Bates M., Huang B., Dempsey G.T., Zhuang X. Multicolor super-resolution imaging with photo-switchable fluorescent probes. Science 2007, 317:1749-1753.
3. Betzig E., Patterson G., Sougrat R., Lindwasser O., Olenych S., Bonifacino J., Davidson M., Lippincott-Schwartz J., Hess H. Imaging intracellular fluorescent proteins at nanometer resolution. Science 2006, 313:1642-1645.
4. Burnette, D.T., Sengupta, P., Dai, Y., Lippincott-Schwartz, J., Kachar, B., 2011. Bleaching/blinking assisted localization microscopy for superresolution imaging using standard fluorescent molecules. Proc. Natl. Acad. Sci. 108, 21081-21086.
5. Burnette D.T., Shao L., Ott C., Pasapera A.M., Fischer R.S., Baird M.A. A contractile and counterbalancing adhesion system controls the 3D shape of crawling cells. J. Cell Biol. 2014, 205:83-96. Der Loughian.
6. Cella Zanacchi F., Lavagnino Z., Perrone Donnorso M., Del Bue A., Furia L., Faretta M., Diaspro A. Live-cell 3D super-resolution imaging in thick biological samples. Nat. Methods 2011, 8:1047-1049.
7. Cox S., Rosten E., Monypenny J., Jovanovic-Talisman T., Burnette D.T., Lippincott-Schwartz J., Jones G.E., Heintzmann R. Bayesian localization microscopy reveals nanoscale podosome dynamics. Nat. Methods 2012, 9:195-200.
8. Débarre D., Botcherby E.J., Booth M.J., Wilson T. Adaptive optics for structured illumination microscopy. Opt. Express 2008, 16:9290-9305.
9. Dertinger, T., Colyera, R., Iyera, G., Weissa, S., Enderleind, J., 2009. Fast, background-free, 3D super-resolution optical fluctuation imaging (SOFI). Proc. Natl. Acad. Sci. 106, 22287-22292.
10. Dertinger T., Heilemann M., Vogel R., Sauer M., Weiss S. Superresolution optical fluctuation imaging with organic dyes. Angew. Chem. 2010, 122:9631-9633.
11. Donnert G., Keller J., Wurm C.A., Rizzoli S.O., Westphal V., Schnle A., Jahn R., Jakobs S., Eggeling C., Hell S.W. Two-color far-field fluorescence nanoscopy. Biophys. J. 2007, 92:L67-L69.
12. Dyba M., Hell S.W. Focal spots of size λ/23 open up far-field florescence microscopy at 33nm axial resolution. Phys. Rev. Lett. 2002, 88:163901.
13. Fernandez-Suarez M., Ting A.Y. Fluorescent probes for super-resolution imaging in living cells. Nat. Rev. Mol. Cell Biol. 2008, 9:929-943.
14. Fiolka, R., Shao, L., Rego, E.H., Davidson, M.W., Gustafsson, M.G.L., 2012. Time-lapse two-color 3d imaging of live cells with doubled resolution using structured illumination. Proc. Natl. Acad. Sci. 109, 5311-5315.
15. Friedrich M., Gan Q., Ermolayev V., Harms G. STED-SPIM. stimulated emission depletion improves sheet illumination microscopy resolution. Biophys. J. 2011, 100:L43-L45.
16. Geissbuehler S., Bocchio N.L., Dellagiacoma C., Berclaz C., Leutenegger M., Lasser T. Mapping molecular statistics with balanced super-resolution optical fluctuation imaging (bSOFI). Opt. Nanoscopy 2012, 1:1-7.
17. Gould T.J., Burke D., Bewersdorf J., Booth M.J. Adaptive optics enables 3D STED microscopy in aberrating specimens. Opt. Express 2012, 20:20998-21009.
18. Gould T.J., Verkhusha V.V., Hess S.T. Imaging biological structures with fluorescence photoactivation localization microscopy. Nat. Protoc. 2009, 4:291-308.
19. Gustaffson M. Surpassing the lateral resolution limit by a factor of two using structured illumination microscopy. J. Microsc. 2000, 198:82-87.
20. Gustaffson M., Shao L., Carlton P., Wang C., Golubovskaya I., Cande W., Agard D., Sedat J. Three-dimensional resolution doubling in wide-field fluorescence microscopy by structured illumination. Biophys. J. 2008, 94:4957-4970.
21. Gustafsson, M., 2005. Nonlinear structured-illumination microscopy: wide-field fluorescence imaging with theoretically unlimited resolution. Proc. Natl. Acad. Sci. 102, 13081-13086.
22. Heilemann M., van de Linde S., Mukherjee A., Sauer M. Super-resolution imaging with small organic fluorophores. Angew. Chem. Int. Ed. 2009, 48:6903-6908.
23. Heilemann M., van de Linde S., Schttpelz M., Kasper R., Seefeldt B., Mukherjee A., Tinnefeld P., Sauer M. Subdiffraction-resolution fluorescence imaging with conventional fluorescent probes. Angew. Chem. Int. Ed. 2008, 47:6172-6176.
24. Heintzmann R. Saturated patterned excitation microscopy with two-dimensional excitation patterns. Micron 2003, 34:283-291.
25. Heintzmann R., Ficz G. Breaking the resolution limit in light microscopy. Methods Cell Biol. 2007, 81:561-580.
26. Heintzmann R., Jovin T., Cremer C. Saturated patterned excitation microscopy - a concept for optical resolution improvement. J. Opt. Soc. Am. A 2002, 19:1599-1609.
27. Hell S. Microscopy and its focal switch. Nat. Methods 2009, 6:24-32.
28. Hell S.W., Wichmann J. Breaking the diffraction resolution limit by stimulated emission. stimulated-emission-depletion fluorescence microscopy. Opt. Lett. 1994, 19:780-782.
29. Henriques R., Lelek M., Fornasiero E.F., Valtorta F., Zimmer C., Mhlanga M.M. Quickpalm. 3D real-time photoactivation nanoscopy image processing in imagej. Nat. Methods 2010, 7:339-340.
30. Hess S.T., Girirajan T.P.K., Mason M.D. Ultra-high resolution imaging by fluorescence photoactivation localization microscopy. Biophys. J. 2006, 91:4258-4272.
31. Hirvonen L., Wicker K., Mandula O., Heintzmann R. Structured illumination microscopy of a living cell. Eur. Biophys. J. 2009, 38:807-812.
32. Holden S.J., Uphoff S., Kapanidis A.N. Daostorm. an algorithm for high- density super-resolution microscopy. Nat. Methods 2011, 8:279-280.
33. Hu Y., Zhu Q., Elkins K., Tse K., Li Y., Fitzpatrick J., Verma I., Cang H. Light-sheet bayesian microscopy enables deep-cell super-resolution imaging of heterochromatin in live human embryonic stem cells. Opt. Nanoscopy 2013, 2:7.
34. Huang B., Wang W., Bates M., Zhuang X. Three-dimensional super-resolution imaging by stochastic optical reconstruction microscopy. Science 2008, 319:810-813.
35. Huang F., Hartwich T.M.P., Rivera-Molina F.E., Lin Y., Duim W.C., Long J.J., Uchil P.D., Myers J.R., Baird M.A., Mothes W., Davidson M.W., Toomre D., Bewersdorf J. Video-rate nanoscopy using scmos camera-specific single-molecule localization algorithms. Nat. Methods 2013, 10:653-658.
36. Huang F., Schwartz S.L., Byars J.M., Lidke K.A. Simultaneous multiple-emitter fitting for single molecule super-resolution imaging. Biomed. Opt. Express 2011, 2:1377-1393.
37. Izeddin I., Beheiry M.E., Andilla J., Ciepielewski D., Darzacq X., Dahan M. Psf shaping using adaptive optics for three-dimensional single-molecule super-resolution imaging and tracking. Opt. Express 2012, 20:4957-4967.
38. Jia S., Vaughan J.C., Zhuang X. Isotropic three-dimensional super-resolution imaging with a self-bending point spread function. Nat. Photonics 2014, 8:302-306.
39. Jones S.A., Shim S.H., He J., Zhuang X. Fast, three-dimensional super-resolution imaging of live cells. Nat. Methods 2011, 8:499-505.
40. Juette M.F., Gould T.J., Lessard M.D., Mlodzianoski M.J., Nagpure B.S., Bennett B.T., Hess S.T., Bewersdorf J. Three-dimensional sub-100nm resolution fluorescence microscopy of thick samples. Nat. Methods 2008, 5:527-529.
41. Kanchanawong P., Shtengel G., Pasapera A.M., Ramko E.B., Davidson M.W., Hess H.F., Waterman C.M. Nanoscale architecture of integrin-based cell adhesions. Nature 2010, 468:580-584.
42. Keller P.J., Schmidt A.D., Santella A., Khairy K., Bao Z., Wittbrodt J., Stelzer E.H.K. Fast, high-contrast imaging of animal development with scanned light sheet-based structured-illumination microscopy. Nat. Methods 2010, 7:637-642.
43. Klar, T., Jakobs, S., Dyba, M., Egner, A., Hell, S., 2000. Fluorescence microscopy with diffraction resolution barrier broken by stimulated emission. Proc. Natl. Acad. Sci. 97, 8206-8210.
44. Klein T., Loschberger A., Proppert S., Wolter S., van de Linde S., Sauer M. Live-cell dstorm with snap-tag fusion proteins. Nat. Methods 2011, 8:7-9.
45. Kner P., Chhun B., Griffis E., Winoto L., Gustafsson M. Super-resolution video microscopy of live cells by structured illumination. Nat. Methods 2009, 6:339-342.
46. Lenz M.O., Sinclair H.G., Savell A., Clegg J.H., Brown A.C.N., Davis D.M., Dunsby C., Neil M.A.A., French P.M.W. 3-D stimulated emission depletion microscopy with programmable aberration correction. J. Biophotonics 2014, 7:29-36.
47. Lesterlin C., Ball G., Schermelleh L., Sherratt D.J. Reca bundles mediate homology pairing between distant sisters during DNA break repair. Nature 2014, 506:249-253.
48. van de Linde S., Löschberger A., Klein T., Heidbreder M., Wolter S., Heilemann M., Sauer M. Direct stochastic optical reconstruction microscopy with standard fluorescent probes. Nat. Protoc. 2011, 6:991-1009.
49. Lukinavicius G., Umezawa K., Olivier N., Honigmann A., Yang G., Plass T., Mueller V., Reymond L., Corra I.R., Luo Z.G., Schultz C., Lemke E.A., Heppenstall P., Eggeling C., Manley S., Johnsson K. A near-infrared fluorophore for live-cell super-resolution microscopy of cellular proteins. Nat. Chem. 2013, 5:132-139.
50. Marsh R.J., Culley S., Bain A.J. Low power super resolution fluorescence microscopy by lifetime modification and image reconstruction. Opt. Express 2014, 22:12327-12338.
51. McGorty R., Schnitzbauer J., Zhang W., Huang B. Correction of depth-dependent aberrations in 3D single-molecule localization and super-resolution microscopy. Opt. Lett. 2014, 39:275-278.
52. Moffitt J.R., Osseforth C., Michaelis J. Time-gating improves the spatial resolution of STED microscopy. Opt. Express 2011, 19:4242-4254.
53. Moneron G., Hell S.W. Two-photon excitation STED microscopy. Opt. Express 2009, 17:14567-14573.
54. Mukamel E., Babcock H., Zhuang X. Statistical deconvolution for superresolution fluorescence microscopy. Biophys. J. 2012, 102:2391-2400.
55. Nieuwenhuizen R.P.J., Lidke K.A., Bates M., Puig D.L., Grunwald D., Stallinga S., Rieger B. Measuring image resolution in optical nanoscopy. Nat. Methods 2013, 10:557-562.
56. Ober R.J., Ram S., Ward E.S. Localization accuracy in single-molecule microscopy. Biophys. J. 2004, 86:1185-1200.
57. Pavani, S.R.P., Thompson, M.A., Biteen, J.S., Lord, S.J., Liu, N., Twieg, R.J., Piestun, R., Moerner, W.E., 2009. Three-dimensional, single-molecule fluorescence imaging beyond the diffraction limit by using a double-helix point spread function. Proc. Natl. Acad. Sci. 106, 2995-2999.
58. Pellett P.A., Sun X., Gould T.J., Rothman J.E., Xu M.Q., Corrêa I.R., Bewersdorf J. Two-color STED microscopy in living cells. Biomed. Opt. Express 2011, 2:2364-2371.
59. Quirin, S., Pavani, S.R.P., Piestun, R., 2012. Optimal 3D single-molecule localization for superresolution microscopy with aberrations and engineered point spread functions. Proc. Natl. Acad. Sci. 109, 675-679.
60. Rankin B., Moneron G., Wurm C., Nelson J., Walter A., Schwarzer D., Schroeder J., Coln-Ramos D., Hell S. Nanoscopy in a living multicellular organism expressing GFP. Biophys. J. 2011, 100:L63-L65.
61. Rees E.J., Erdelyi M., Pinotsi D., Knight A., Metcalf D., Kaminski C.F. Blind assessment of localisation microscope image resolution. Opt. Nanoscopy 2012, 1:12.
62. Rego, E.H., Shao, L., Macklin, J.J., Winoto, L., Johansson, G.A., Kamps-Hughes, N., Davidson, M.W., Gustafsson, M.G.L., 2012. Nonlinear structured-illumination microscopy with a photoswitchable protein reveals cellular structures at 50-nm resolution. Proc. Natl. Acad. Sci. 109, E135-E143.
63. Ries J., Kaplan C., Platonova E., Eghlidi H., Ewers H. A simple, versatile method for GFP-based super-resolution microscopy via nanobodies. Nat. Methods 2012, 9:582-584.
64. Rust M., Bates M., Zhuang X. Sub-diffraction-limit imaging by stochastic optical reconstruction microscopy (STORM). Nat. Methods 2006, 3:793-796.
65. Schermelleh L., Carlton P.M., Haase S., Shao L., Winoto L., Kner P., Burke B., Cardoso M.C., Agard D.A., Gustafsson M.G.L., Leonhardt H., Sedat J.W. Subdiffraction multicolor imaging of the nuclear periphery with 3D structured illumination microscopy. Science 2008, 320:1332-1336.
66. Schermelleh L., Heintzmann R., Leonhardt H. A guide to super-resolution fluorescence microscopy. J. Cell Biol. 2010, 190:165-175.
67. Sheppard C.J.R., Mehta S.B., Heintzmann R. Superresolution by image scanning microscopy using pixel reassignment. Opt. Lett. 2013, 38:2889-2892.
68. Shroff H., Galbraith C., Galbraith J., Betzig E. Live-cell photoactivated localization microscopy of nanoscale adhesion dynamics. Nat. Methods 2008, 5:417-423.
69. Shtengel, G., Galbraith, J.A., Galbraith, C.G., Lippincott-Schwartz, J., Gillette, J.M., Manley, S., Sougrat, R., Waterman, C.M., Kanchanawong, P., Davidson, M.W., Fetter, R.D., Hess, H.F., 2009. Interferometric fluorescent super-resolution microscopy resolves 3D cellular ultrastructure. Proc. Natl. Acad. Sci. 106, 3125-3130.
70. Simonson P.D., Rothenberg E., Selvin P.R. Single-molecule-based super-resolution images in the presence of multiple fluorophores. Nano Lett. 2011, 11:5090-5096.
71. Takasaki K., Ding J., Sabatini B. Live-cell superresolution imaging by pulsed STED two-photon excitation microscopy. Biophys. J. 2013, 104:770-777.
72. Thompson R.E., Larson D.R., Webb W.W. Precise nanometer localization analysis for individual fluorescent probes. Biophys. J. 2002, 82:2775-2783.
73. Vicidomini G., Moneron G., Han K.Y., Westphal V., Ta H., Reuss M., Engelhardt J., Eggeling C., Hell S.W. Sharper low-power STED nanoscopy by time gating. Nat. Methods 2011, 8:571-573.
74. Westphal V., Rizzoli S., Lauterbach M., Kamin D., Jahn R., Hell S. Video-rate far-field optical nanoscopy dissects synaptic vesicle movement. Science 2008, 320:246-249.
75. Willig K.I., Harke B., Medda R., Hell S.W. STED microscopy with continuous wave beams. Nat. Methods 2007, 4:915-918.
76. Wombacher R., Heidbreder M., van de Linde S., Sheetz M., Heilemann M., Cornish V., Sauer M. Live-cell super-resolution imaging with trimethoprim conjugates. Nat. Methods 2010, 7:717-719.
77. York A.G., Chandris P., Nogare D.D., Head J., Wawrzusin P., Fischer R.S., Chitnis A., Shroff H. Instant super-resolution imaging in live cells and embryos via analog image processing. Nat Methods 2013, 10:1122-1126.
78. York A.G., Parekh S.H., Nogare D.D., Fischer R.S., Temprine K., Mione M., Chitnis A.B., Combs C.A., Shroff H. Resolution doubling in live, multicellular organisms via multifocal structured illumination microscopy. Nat. Methods 2012, 9:749-754.
79. Zhu L., Zhang W., Elnatan D., Huang B. Faster STORM using compressed sensing. Nat. Methods 2012, 9:721-723.