A pixel-based likelihood framework for analysis of fluorescence recovery after photobleaching data

Journal of Microscopy

Volumn 232, Issue 2, 2008, Pages 260-269

  Jonasson, J K ^a   Loren N ^b   Olofsson, P ^b   Nyden M ^a   Rudemo, M ^a  

^a CHALMERS UNIVERSITY OF TECHNOLOGY   (Sweden)

^b SIK THE SWEDISH INSTITUTE FOR FOOD AND BIOTECHNOLOGY   (Sweden)

Author keywords

CLSM; Diffusion; Error estimate

Indexed keywords

FLUORESCENCE; OPTICAL TRANSFER FUNCTION; PHOTOBLEACHING; PIXELS;

CONFOCAL LASER SCANNING MICROSCOPY; CONFOCAL-LASER-SCANNING-MICROSCOPY; DIFFUSION PROCESS; ERROR ESTIMATES; FLUORESCENCE RECOVERY AFTER PHOTOBLEACHING; HOMOGENEOUS AND HETEROGENEOUS MATERIAL; LIKELIHOOD FUNCTIONS; LOCALISED; STATISTICAL METHODOLOGIES; TIME-DIFFERENCES;

DIFFUSION;

FLUOROCHROME; MACROGOL;

ARTICLE; BLEACHING; CONFOCAL LASER MICROSCOPY; DIFFUSION; FLUORESCENCE; MATHEMATICAL COMPUTING; NUCLEAR MAGNETIC RESONANCE; PRIORITY JOURNAL;

EID: 55349146646     PISSN: 00222720     EISSN: 13652818     Source Type: Journal    
DOI: 10.1111/j.1365-2818.2008.02097.x     Document Type: Article

References (39)

1. Alvarez-Mancenido, F., Braeckmans, K., Smedt, S.D., Demeester, J., Landin, M. & Martinez-Pacheco, R. (2006) Characterization of diffusion of macromolecules in konjac glucomannan solutions and gels by fluorescence recovery after photobleaching technique. Int. J. Pharm. 316, 37 46.
2. Axelrod, D., Koppel, D.E., Schlessinger, J., Elson, E. & Webb, W.W. (1976) Mobility measurements by analysis of fluorescence photobleaching recovery kinetics. Biophys. J. 16, 1055 1069.
3. Berk, D., Yuan, F., Leunig, M. & Jain, R. (1993) Fluorescence photobleaching with spatial Fourier analysis. Measurement of diffusion in light-scattering media. Biophys. J. 65, 2428 2436.
4. Blonk, J.C.G., Don, A., van Aalst, H. & Birmingham, J.J. (1993) Fluorescence photobleaching recovery in the confocal scanning light microscope. J. Microsc. 169 (3 363 374.
5. Braeckmans, K., Peeters, L., Sanders, N.N., Smedt, S.C.D. & Demeester, J. (2003) Three-dimensional fluorescence recovery after photobleaching with the confocal scanning laser microscope. Biophys. J. 85, 2240 2252.
6. Braeckmans, K., Remaut, K., Vandenbroucke, R.E., Lucas, B., Smedt, S.C.D. & Demeester, J. (2007) Line FRAP with the confocal laser scanning microscope for diffusion measurements in small regions of 3-D samples. Biophys. J. 92, 2172 2183.
7. Braga, J., Desterro, J.M.P. & Carmo-Fonseca, M. (2004) Intracellular macromolecular mobility measured by fluorescence recovery after photobleaching with confocal laser scanning microscopes. Mol. Biol. Cell. 15, 4749 4760.
8. Brown, E.B., Wu, E.S., Zipfel, W. & Webb, W. (1999) Measurement of molecular diffusion in solution by multiphoton fluorescence photobleaching recovery. Biophys. J. 77, 2837 2849.
9. Burke, M.D., Park, J.O., Srinivasarao, M. & Khan, S.A. (2000) Diffusion of macromolecules in polymer solutions and gels: a laser scanning confocal microscopy study. Macromolecules 33, 7500 7507.
10. Chen, Y., Lagerholm, B.C., Yang, B. & Jacobson, K. (2006) Methods to measure the lateral diffusion of membrane lipids and proteins. Methods 39, 147 153.
11. Cheng, Y. & Prud'homme, R.K. (2002) Diffusion of mesoscopic probes in aqueous polymer solutions measured by fluorescence recovery after photobleaching. Macromolecules 35, 8111 8121.
12. Crank, J. (1975) The Mathematics of Diffusion. 2nd edn. Clarendon Press, Oxford.
13. Diaspro, A. (2002) Confocal and Two-photon Microscopy; Foundations, Applications and Advances, Chap 5. 1st edn. Wiley-Liss, New York.
14. Herman, B. (1998) Fluorescence Microscopy, Chap. 5. 2nd edn. Bios Scientific Publishers, Oxford.
15. Hermansson, A.M., Lorén, N. & Nydén, M. (2006) The effect of microstructure on solvent and solute diffusion on the micro and nano length scales. Water Properties of Food, Pharmaceutical, and Biological Materials, Chap. 2. 1st edn. CRC Taylor and Francis, Boca Raton.
16. Keuren, E.V. & Schrof, W. (2003) Fluorescence recovery after two-photon bleaching for the study of dye diffusion in polymer systems. Macromolecules 36, 5002 5007.
17. Kubitscheck, U., Wedekind, P. & Peters, R. (1994) Lateral diffusion measurements at high spatial resolution by scanning microphotolysis in a confocal microscope. Biophys. J. 67, 948 956.
18. Kubitscheck, U., Wedekind, P. & Peters, R. (1998) Three-dimensional diffusion measurements by scanning microphotolysis. J. Microsc. 192, 126 138.
19. Lippincott-Schwartz, J., Snapp, E. & Kenworthy, A. (2001) Studying protein dynamics in living cells. Nat. Rev. Mol. Cell Biol. 2, 444 456.
20. Lorén, N., Hagslätt, H., Nydén, M. & Hermansson, A.M. (2005) Water mobility in heterogeneous emulsions determined by a new combination of confocal laser scanning microscopy, image analysis, nuclear magnetic resonance diffusometry, and finite element method simulation. J. Chem. Phys. 122, 024716.
21. Meyvis, T.K.L., Smedt, S.C.D., Oostveldt, P.V. & Demeester, J. (1999) Fluorescence recovery after photobleaching: a versatile tool for mobility and interaction measurements in pharmaceutical research. Pharmaceut. Res. 16 (8 1153 1162.
22. Pawitan, Y. (2001) In All Likelihood: Statistical Modelling and Inference Using Likelihood. Oxford University Press, Oxford.
23. Pawley, J. (2006) Handbook of Biological Confocal Microscopy, Chap. 1. 3rd edn. Springer, New York.
24. Perry, P.A., Fitzgerald, M.A. & Gilbert, R.G. (2006) Fluorescence recovery after photobleaching as a probe of diffusion in starch systems. Biomacromolecules 7, 521 530.
25. Phair, R.D. & Misteli, T. (2001) Kinetic modelling approaches to in vivo imaging. Nat. Rev. Mol. Cell Biol. 2, 898 907.
26. Seiffert, S. & Oppermann, W. (2005) Systematic evaluation of frap experiments performed in a confocal laser scanning microscope. J. Microsc. 220, 20 30.
27. Siggia, E.D., Lippincott-Schwartz, J. & Bekiranov, S. (2000) Diffusion in inhomogeneous media: theory and simulations applied to whole cell photobleach recovery. Biophys. J. 79, 1761 1770.
28. Smedt, S.C.D., Meyvis, T.K.L., Demeester, J., Oostveldt, P.V., Blonk, J.C.G. & Hennink, W.E. (1997) Diffusion of macromolecules in dextran methacrylate solutions and gels as studied by confocal scanning laser microscopy. Macromolecules 30, 4863 4870.
29. Sonesson, A.W., Callisen, T.H., Brismar, H. & Elofsson, U.M. (2005) Lipase surface diffusion studied by fluorescence recovery after photobleaching. Langmuir 21, 11949 11956.
30. Soumpasis, D.M. (1983) Theoretical analysis of fluorescence photobleaching recovery experiments. Biophys. J. 41, 95 97.
31. Sprague, B. & McNally, J. (2005) FRAP analysis of binding: proper and fitting. Trends Cell Biol. 15, 84 91.
32. Tsay, T. & Jacobson, K.A. (1991) Spatial Fourier analysis of video photobleaching measurements. Principles and optimisation. Biophys. J. 60, 360 368.
33. van Oostveldt, P. & Bauwens, S. (1990) Quantitative fluorescence in confocal microscopy: the effect of the detection pinhole aperature on the re-absorption and inner filter phenomena. J. Microsc. 158, 121 132.
34. Verkman, A.S. (2003) Diffusion in cells measured by fluorescence recovery after photobleaching. Biophotonics, Part A Methods in Enzymology. Academic Press, San Diego.
35. Walther, B., Lorén, N., Nydén, M. & Hermansson, A.M. (2006) Influence of κ-carrageenan gel structures on the diffusion of probe molecules determined by transmission electron microscopy and NMR diffusometry. Langmuir 22, 8221 8228.
36. Wedekind, P., Kubitscheck, U., Heinrich, O. & Peters, R. (1996) Line-scanning microphotolysis for diffraction-limited measurements of lateral diffusion. Biophys. J. 71, 1621 1632.
37. Wedekind, P., Kubitscheck, U. & Peters, R. (1994) Scanning microphotolysis: a new photobleaching technique based on fast intensity modulation of a scanned laser beam and confocal imaging. J. Microsc. 176, 23 33.
38. Weiss, M. (2004) Challenges and artifacts in quantitative photobleaching experiments. Traffic 5, 662 671.
39. Westrin, B., Axelsson, A. & Zacchi, G. (1994) Diffusion measurements in gels. J. Contr. Release 30, 189 199.