The performance of 2D array detectors for light sheet based fluorescence correlation spectroscopy

Optics Express

Volumn 21, Issue 7, 2013, Pages 8652-8668

  Singh, Anand Pratap ^a   Krieger, Jan Wolfgang ^b   Buchholz, Jan ^b   Charbon, Edoardo ^c   Langowski, Jörg ^b   Wohland, Thorsten ^a  

^a NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

^b GERMAN CANCER RESEARCH CENTER DKFZ   (Germany)

^c DELFT UNIVERSITY OF TECHNOLOGY   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

CAMERAS; CHARGE COUPLED DEVICES; DIFFUSION; FLUORESCENCE; FLUORESCENCE SPECTROSCOPY; PIXELS;

ABSOLUTE DIFFUSION COEFFICIENTS; COMPLEMENTARY METAL OXIDE SEMICONDUCTORS; CONCENTRATION GRADIENTS; ELECTRON MULTIPLYING CHARGE COUPLED DEVICES; FLUORESCENCE CORRELATION SPECTROSCOPY; FLUORESCENCE SIGNALS; SINGLE PARTICLE TRACKING; SINGLE PHOTON AVALANCHE DIODE;

DETECTORS;

ARTICLE; EQUIPMENT; EQUIPMENT DESIGN; EQUIPMENT FAILURE; FLUORESCENCE MICROSCOPY; LIGHT; SEMICONDUCTOR; SPECTROFLUOROMETRY; THREE DIMENSIONAL IMAGING; TRANSDUCER;

EQUIPMENT DESIGN; EQUIPMENT FAILURE ANALYSIS; IMAGING, THREE-DIMENSIONAL; LIGHT; MICROSCOPY, FLUORESCENCE; SEMICONDUCTORS; SPECTROMETRY, FLUORESCENCE; TRANSDUCERS;

EID: 84875983194     PISSN: None     EISSN: 10944087     Source Type: Journal    
DOI: 10.1364/OE.21.008652     Document Type: Article

References (76)

1. K. M. Berland, P. T. So, and E. Gratton, "Two-photon fluorescence correlation spectroscopy: method and application to the intracellular environment," Biophy. J. 68, 694-701 (1995).
2. P. Schwille, U. Haupts, S. Maiti, andW.W.Webb, "Molecular dynamics in living cells observed by fluorescence correlation spectroscopy with one-and two-photon excitation," Biophy. J. 77, 2251-2265 (1999).
3. R. Brock, G. Vàmosi, G. Vereb, and T. M. Jovin, "Rapid characterization of green fluorescent protein fusion proteins on the molecular and cellular level by fluorescence correlation microscopy," Proc. Natl. Acad. Sci. U.S.A. 96, 10123-10128 (1999).
4. M. Wachsmuth, W. Waldeck, and J. Langowski, "Anomalous diffusion of fluorescent probes inside living cell nuclei investigated by spatially-resolved fluorescence correlation spectroscopy," J. Mol. Biol. 298, 677-689 (2000).
5. R. H. Köhler, P. Schwille, W. W. Webb, and M. R. Hanson, "Active protein transport through plastid tubules: velocity quantified by fluorescence correlation spectroscopy," J. Cell Sci. 113, 3921-3930 (2000).
6. X. Pan, H. Yu, X. Shi, V. Korzh, and T. Wohland, "Characterization of flow direction in microchannels and zebrafish blood vessels by scanning fluorescence correlation spectroscopy," J. Biomed. Opt. 12, 014034 (2007).
7. X. Shi, Y. H. Foo, T. Sudhaharan, S. W. Chong, V. Korzh, S. Ahmed, and T. Wohland, "Determination of dissociation constants in living zebrafish embryos with single wavelength fluorescence cross-correlation spectroscopy," Biophy. J. 97, 678-786 (2009).
8. X. Shi, L. S. Teo, X. Pan, S. W. Chong, R. Kraut, V. Korzh, and T. Wohland, "Probing events with single molecule sensitivity in zebrafish and Drosophila embryos by fluorescence correlation spectroscopy," Dev. Dyn. 238, 3156-3167 (2009).
9. D. Magde, E. Elson, W. Webb, and W. W. Magde, Douglas, Elliot Elson, "Thermodynamic fluctuations in a reacting system-measurement by fluorescence correlation spectroscopy," Phy. Rev. Lett. 29, 705-708 (1972).
10. R. Rigler, U. Mets, J. Widengren, and P. Kask, "Fluorescence correlation spectroscopy with high count rate and low background: analysis of translational diffusion," Eur. Biophys. J. 22, 169-175 (1993).
11. H. Blom, M. Johansson, A. S. Hedman, L. Lundberg, A. Hanning, S. Hard, and R. Rigler, "Parallel fluorescence detection of single biomolecules in microarrays by a diffractive-optical-designed 2 x 2 fan-out element," Appl. Opt. 41, 3336 (2002).
12. M. Gösch, A. Serov, T. Anhut, T. Lasser, A. Rochas, P.-A. Besse, R. S. Popovic, H. Blom, and R. Rigler, "Parallel single molecule detection with a fully integrated single-photon 2x2 CMOS detector array," J. Biomed. Opt. 9, 913-921 (2004).
13. T. Dertinger, V. Pacheco, I. von der Hocht, R. Hartmann, I. Gregor, and J. Enderlein, "Two-focus fluorescence correlation spectroscopy: A new tool for accurate and absolute diffusion measurements," ChemPhysChem. 8, 433-443 (2007).
14. D. J. Needleman, Y. Xu, and T. J. Mitchison, "Pin-hole array correlation imaging: Highly parallel fluorescence correlation spectroscopy," Biophy. J. 96, 5050-5059 (2009).
15. N. Dross, C. Spriet, M. Zwerger, G. Müller, W. Waldeck, and J. Langowski, "Mapping EGFP oligomer mobility in living cell nuclei," PLoS ONE 4, e5041 (2009).
16. T.Wilson, R. Juškaitis, M. A. A. Neil, and M. Kozubek, "Confocal microscopy by aperture correlation," Opt.Lett. 21, 1879-1881 (1996).
17. B. Kannan, J. Y. Har, P. Liu, I. Maruyama, J. L. Ding, and T. Wohland, "Electron multiplying charge-coupled device camera based fluorescence correlation spectroscopy," Anal. chem. 78, 3444-3451 (2006).
18. M. Burkhardt and P. Schwille, "Electron multiplying CCD based detection for spatially resolved fluorescence correlation spectroscopy," Opt. Express 14, 5013 (2006).
19. M. K. Landsberg, G. Herbomel, I. Wang, J. Derouard, C. Vourc'h, Y. Usson, C. Souchier, and A. Delon, "Cellular response to heat shock studied by multiconfocal fluorescence correlation spectroscopy," Biophy. J. 103, 1110-1119 (2012).
20. D. R. Sisan, R. Arevalo, C. Graves, R. McAllister, and J. S. Urbach, "Spatially resolved fluorescence correlation spectroscopy using a spinning disk confocal microscope," Biophy. J. 91, 4241-4252 (2006).
21. P. W. Wiseman, C. M. Brown, D. J. Webb, B. Hebert, N. L. Johnson, J. a. Squier, M. H. Ellisman, and a. F. Horwitz, "Spatial mapping of integrin interactions and dynamics during cell migration by image correlation microscopy," J. Cell Sci. 117, 5521-5534 (2004).
22. B. Hebert, S. Costantino, and P.W. P.Wiseman, "Spatiotemporal image correlation spectroscopy (STICS) theory, verification, and application to protein velocity mapping in living CHO cells," Biophy. J. 88, 3601-3614 (2005).
23. C. M. Brown, B. Hebert, D. L. Kolin, J. Zareno, L. Whitmore, A. R. Horwitz, and P. W. Wiseman, "Probing the integrin-actin linkage using high-resolution protein velocity mapping," J. Cell Sci. 119, 5204-5214 (2006).
24. M. Digman, C. Brown, and P. Sengupta, "Measuring fast dynamics in solutions and cells with a laser scanning microscope," Biophy. J. 89 1317-1327 (2005).
25. S. C. P. Norris, J. Humpolíčková, E. Amler, M. Huranová, M. Buzgo, R. Machán, D. Lukáš, and M. Hof, "Raster image correlation spectroscopy as a novel tool to study interactions of macromolecules with nanofiber scaffolds," Acta Biomater. 7, 4195-4203 (2011).
26. R. A. Colyer, G. Scalia, I. Rech, A. Gulinatti, M. Ghioni, S. Cova, S. Weiss, and X. Michalet, "High-throughput FCS using an LCOS spatial light modulator and an 8 x 1 SPAD array," Biomed. Opt. Express 1, 1408-1431 (2010).
27. R. A. Colyer, G. Scalia, F. a. Villa, F. Guerrieri, S. Tisa, F. Zappa, S. Cova, S. Weiss, and X. Michalet, "Ultra high-throughput single molecule spectroscopy with a 1024 pixel SPAD," in "Proc. SPIE," , vol. 7905 790503-1 (2011).
28. J. R. Unruh and E. Gratton, "Analysis of molecular concentration and brightness from fluorescence fluctuation data with an electron multiplied CCD camera," Biophy. J. 95, 5385-5398 (2008).
29. D. Oh, A. Zidovska, Y. Xu, and D. J. Needleman, "Development of time-integrated multipoint moment analysis for spatially resolved fluctuation spectroscopy with high time resolution," Biophy. J. 101, 1546-1554 (2011).
30. B. Kannan, L. Guo, T. Sudhaharan, S. Ahmed, I. Maruyama, and T. Wohland, "Spatially resolved total internal reflection fluorescence correlation microscopy using an electron multiplying charge-coupled device camera," Anal. Chem. 79, 4463-4470 (2007).
31. J. Sankaran, M. Manna, L. Guo, R. Kraut, and T.Wohland, "Diffusion, transport, and cell membrane organization investigated by imaging fluorescence cross-correlation spectroscopy," Biophy. J. 97, 2630-2639 (2009).
32. J. Huisken, J. Swoger, F. Del Bene, J.Wittbrodt, E. H. K. Stelzer, and F. D. Bene, "Optical sectioning deep inside live embryos by selective plane illumination microscopy," Science 305, 1007-1009 (2004).
33. K. Greger, J. Swoger, and E. H. K. Stelzer, "Basic building units and properties of a fluorescence single plane illumination microscope," Rev. Sci. Instrum. 78, 023705 (2007).
34. T. Wohland, X. Shi, J. Sankaran, and E. H. K. Stelzer, "Single plane illumination fluorescence correlation spectroscopy (SPIM-FCS) probes inhomogeneous three-dimensional environments," Opt. Express 18, 1317-1327 (2010).
35. J. Capoulade, M.Wachsmuth, L. Hufnagel, and M. Knop, "Quantitative fluorescence imaging of protein diffusion and interaction in living cells," Nat. Biotechnol. 29, 835-839 (2011).
36. L. C. Hwang and T.Wohland, "Recent advances in fluorescence cross-correlation spectroscopy," Cell Bio-chem. Biophys. 49, 1-13 (2007).
37. E. Baumgart and U. Kubitscheck, "Scanned light sheet microscopy with confocal slit detection," Opt. Express 20, 21805-21814 (2012).
38. F. Bestvater, Z. Seghiri, M. S. Kang, N. Gröner, J. Y. Lee, K.-B. Im, and M. Wachsmuth, "EMCCD-based spectrally resolved fluorescence correlation spectroscopy," Opt. Express 18, 23818-23828 (2010).
39. J. Sankaran, X. Shi, L. Y. Ho, E. H. K. Stelzer, and T. Wohland, "ImFCS: a software for imaging FCS data analysis and visualization," Opt. Express 18, 25468-25481 (2010).
40. J. Buchholz, J. W. Krieger, G. Mocsár, B. Kreith, E. Charbon, G. Vámosi, U. Kebschull, and J. Langowski, "FPGA implementation of a 32x32 autocorrelator array for analysis of fast image series," Opt. Express 20, 17767 (2012).
41. C. Jakob, A. Schwarzbacher, B. Hoppe, and R. Peters, "The development of a digital multichannel correlator system for light scattering experiments," in "IET Irish Signals and Systems Conference (ISSC 2006)," , vol. 2006 (IEEE, 2006), vol. 2006, pp. 99-103.
42. C. Jakob, a. T. Schwarzbacher, B. Hoppe, and R. Peters, "A FPGA optimised digital real-time mutichannel correlator architecture," in "10th Euromicro Conference on Digital System Design Architectures, Methods and Tools (DSD 2007)," (IEEE, 2007), pp. 35-42.
43. G. Mocsár, B. Kreith, J. Buchholz, J. W. Krieger, J. Langowski, and G. Vámosi, "Note: multiplexed multiple-tau auto-and cross-correlators on a single field programmable gate array," Rev. Sci. Instrum. 83, 046101 (2012).
44. S. Kalinin, R. Kühnemuth, H. Vardanyan, and C. a. M. Seidel, "Note: A 4 ns hardware photon correlator based on a general-purpose field-programmable gate array development board implemented in a compact setup for fluorescence correlation spectroscopy," Rev. Sci. Instrum. 83, 096105 (2012).
45. X. Michalet, O. H. W. Siegmund, J. V. Vallerga, P. Jelinsky, J. E. Millaud, and S. Weiss, "Detectors for single-molecule fluorescence imaging and spectroscopy," J. Mod. Optics 54, 239-281 (2007).
46. L. Carrara, C. Niclass, N. Scheidegger, H. Shea, and E. Charbon, "A gamma, x-ray and high energy proton radiation-tolerant CIS for space applications" in "IEEE International Solid-State Circuits Conference-Digest of Technical Papers," (IEEE, 2009), pp. 40-41.
47. J. W. Krieger and J. Langowski, "Quickfit 3.0: A data evaluation application for biophysics," http://www.dkfz.de/Macromol/quickfit/ (2013).
48. N. L. Thompson, Fluorescence correlation spectroscopy (Springer, 2002), pp. 337-378.
49. N. Bag, J. Sankaran, A. Paul, R. S. Kraut, and T. Wohland, "Calibration and limits of camera-based fluorescence correlation spectroscopy: a supported lipid bilayer study," ChemPhysChem. 13, 2784-2794 (2012).
50. X. Pan,W. Foo,W. Lim, M. H. Y. Fok, P. Liu, H. Yu, I. Maruyama, and T.Wohland, "Multifunctional fluorescence correlation microscope for intracellular and microfluidic measurements," Rev. Sci. Instrum. 78, 053711 (2007).
51. M. Wachsmuth, "Fluoreszenzfluktuationsmikroskopie: Entwicklung eines prototyps, theorie und messung der beweglichkeit von biomolekülen im zellkern: Doctoral dissetation," Ruprecht-Karls-Universität ,Heidelberg. (2001).
52. P. Kapusta, "Absolute diffusion coefficients: compilation of reference data for FCS calibration," Pico-Quant pp. 0-1 (2010).
53. Z. Petrásek, P. Schwille, and Z. Petrášek, "Precise measurement of diffusion coefficients using scanning fluorescence correlation spectroscopy," Biophy. J. 94, 1437-1448 (2008).
54. P. J. Keller, A. D. Schmidt, A. Santella, K. Khairy, Z. Bao, J.Wittbrodt, and E. H. K. Stelzer, "Fast, high-contrast imaging of animal development with scanned light sheet-based structured-illumination microscopy," Nat. Methods 7, 637-642 (2010).
55. D. Blair and E. Dufresne, "The matlab particle tracking code ," http://physics.georgetown.edu/matlab/.
56. S. M. Hashmi, M. Loewenberg, and E. R. Dufresne, "Spatially extended FCS for visualizing and quantifying high-speed multiphase flows in microchannels,"Opt. Express 15, 6528-6533 (2007).
57. A. E. Kamholz, B. H. Weigl, B. a. Finlayson, and P. Yager, "Quantitative analysis of molecular interaction in a microfluidic channel: the T-sensor," Anal. Chem. 71, 5340-5347 (1999).
58. D. Broboana, C. Mihai Balan, T. Wohland, and C. Balan, "Investigations of the unsteady diffusion process in microchannels," Chem. Eng. Sci. 66, 1962-1972 (2011).
59. H. Y. Gan, Y. C. Lam, N. T. Nguyen, K. C. Tam, and C. Yang, "Efficient mixing of viscoelastic fluids in a microchannel at low Reynolds number," Microfluid. Nanofluid. 3, 101-108 (2006).
60. H. C. Berg, Random walks in biology (Princeton University Press, 1993).
61. D. Magde, E. L. Elson, and W. W. Webb, "Fluorescence correlation spectroscopy. II. An experimental realization," Biopolymers 13, 29-61 (1974).
62. S. Ivanchenko and D. C Lamb, Fluorescence correlation spectroscopy: Principles and developments (Springer , 2011), pp. 1-30.
63. D. Koppel, "Statistical accuracy in fluorescence correlation spectroscopy," Phys. Rev. A 10, 1938-1945 (1974).
64. P. Kapusta, M. Wahl, A. Benda, M. Hof, and J. Enderlein, "Fluorescence lifetime correlation spectroscopy," J. Fluoresc. 17, 43-48 (2007).
65. K. Starchev, J. Zhang, and J. Buffle, "Applications of fluorescence correlation spectroscopy-Particle size effect," J. Colloid Interface Sci. 203, 189-196 (1998).
66. Y. Reibel, M. Jung, M. Bouhifd, B. Cunin, and C. Draman, "CCD or CMOS camera noise characterisation," Eur. Phys. J-Appl. Phys. 21, 75-80 (2002).
67. T. Dertinger, R. Colyer, G. Iyer, S. Weiss, and J. Enderlein, "Fast, background-free, 3D super-resolution optical fluctuation imaging (SOFI)," Proc. Natl. Acad. Sci. U.S.A. 106, 22287-22292 (2009).
68. S. Cox, E. Rosten, J. Monypenny, T. Jovanovic-Talisman, D. T. Burnette, J. Lippincott-Schwartz, G. E. Jones, and R. Heintzmann, "Bayesian localization microscopy reveals nanoscale podosome dynamics," Nat. Methods 9, 195-200 (2012).
69. C. G. Coates, "Back-illuminated electron multiplying technology: the world's most sensitive CCD for ultralow-light microscopy," in "Proceedings of SPIE," vol. 4962 (SPIE, 2003), pp. 319-328.
70. C. G. Coates, D. J. Denvir, N. G. McHale, K. D. Thornbury, and M. A. Hollywood, "Optimizing low-light microscopy with back-illuminated electron multiplying charge-coupled device: enhanced sensitivity, speed, and resolution," J. Biomed. Opt. 9, 1244-1252 (2004).
71. S. Iwabuchi, Y. Maruyama, Y. Ohgishi, M. Muramatsu, N. Karasawa, and T. Hirayama, "A back-illuminated high-sensitivity small-pixel color CMOS image sensor with flexible layout of metal wiring," in "IEEE International Solid State Circuits Conference," (IEEE, 2006), pp. 1171-1178.
72. T. Joy, S. Pyo, S. Park, C. Choi, C. Palsule, H. Han, C. Feng, S. Lee, J. McKee, P. Altice, C. Hong, C. Boemler, J. Hynecek, M. Louie, J. Lee, D. Kim, H. Haddad, and B. Pain, "Development of a production-ready, back-illuminated CMOS image sensor with small pixels," in "IEEE International Electron Devices Meeting," (IEEE, 2007), pp. 1007-1010.
73. E. Randone, G. Martini, M. Fathi, and S. Donati, "SPAD-array photoresponse is increased by a factor 35 by use of a microlens array concentrator," in "IEEE LEOS Annual Meeting Conference Proceedings," vol. 46 (IEEE, 2009), pp. 324-325.
74. E. Charbon, and S. Donati, "SPAD sensors come of age," Optics & Photonics News 21, 35-41 (2010).
75. M. J. Culbertson, J. T. B. Williams, W. W. L. Cheng, D. A. Stults, E. R. Wiebracht, J. J. Kasianowicz, and D. L. Burden "Numerical fluorescence correlation spectroscopy for the analysis of molecular dynamics under nonstandard conditions," Anal. Chem. 79, 4031-4039 (2007).
76. H. C. Burstyn, and J. V. Sengers, "Time dependence of critical concentration fluctuations in a binary liquid," Phys. Rev. A 27, 1071-1085 (1983).