Nanosizing by spatially modulated illumination (SMI) microscopy and applications to the nucleus

Methods in Molecular Biology

Volumn 464, Issue , 2008, Pages 389-401

  Birk, Udo J ^a   Baddeley, David ^a   Cremer, Christoph ^a  

^a UNIVERSITY OF HEIDELBERG   (Germany)

Author keywords

Fluorescence microscopy; Sizes and distances; SMI nanosizing; Structured illumination; Transcription factories

Indexed keywords

EID: 60349086389     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-60327-461-6_21     Document Type: Article

References (28)

1. O'Brien, T. P., Bult, C. J., Cremer, C., Grunze, M., Knowles, B. B., Langowski, J., McNally, J., Pederson, T., Politz, J. C., Pombo, A., Schmahl, G., Spatz, J. P., and van Driel, R. (2003) Genome function and nuclear architecture: from gene expression to nanoscience. Genome Res. 13, 1029-1041.
2. Odenheimer, J., Kreth, G., and Heermann, D. W. (2005) Dynamic simulation of active/inactive chromatin domains. J. Biol. Phys. 31, 351-363.
3. Egner, A. and Hell, S. W. (2005) Fluorescence microscopy with super-resolved optical sections. Trends Cell Biol. 15, 207-215.
4. Hell, S. W., Lindek, S., Cremer, C., and Stelzer, E. H. K. (1994) Measurement of the 4Pi-confocal point spread function proves 75 nm resolution. Appl. Phys. Lett. 64, 1335-1337.
5. Willig, K. I., Rizzoli, S. O., Westphal, V., Jahn, R., and Hell, S. W. (2006) Nanoscale resolution in GFP-based microscopy. Nature 440, 935-939.
6. Westphal, V. and Hell, S. W. (2005) Nanoscale resolution in the focal plane of an optical microscope. Phys. Rev. Lett. 94, 143903.
7. Gustafsson, M. G. L., Agard, D. A., and Sedat, J. W. (1995) Seven-fold improvement of axial resolution in 3-D widefield microscopy using two objective lenses. Proc. SPIE 2412, 147-156.
8. Gustafsson, M. G. (2005) Nonlinear structured-illumination microscopy: wide-field fluorescence imaging with theoretically unlimited resolution. Proc. Natl. Acad. Sci. USA 102, 13081-13086.
9. Heintzmann, R., Jovin, T. M., and Cremer, C. (2002) Saturated patterned excitation microscopy (SPEM) - a novel concept for optical resolution improvement. J. Opt. Soc. Am. A. Opt. Image Sci. Vis. 19, 1599-1609.
10. Frohn, J. T., Knapp, H. F., and Stemmer, A. (2001) Three-dimensional resolution enhancement in fluorescence microscopy by harmonic excitation. Opt. Lett. 26, 828-830.
11. Frohn, J. T., Knapp, H. F., and Stemmer, A. (2000) True optical resolution beyond the Rayleigh limit achieved by standing wave illumination. Proc. Natl. Acad. Sci. USA 97, 7232-7236.
12. Bornfleth, H., Sätzler, K., Eils, R., and Cremer, C. (1998) High precision distance measurements and volume-conserving segmentation of objects near and below the resolution limit in three-dimensional confocal fluorescence microscopy. J. Microsc. 189, 118-136.
13. Cremer, C., Edelmann, P., Bornfleth, H., Luz, H., Kreth, G., Münch, H., and Hausmann, M. (1999) in Handbook of computer vision and applications, Vol. 3 (Jahne, B., Haußecker, H. and Geißler, P., Eds.), pp. 839-857, Academic Press, San Diego, New York.
14. Heilemann, M., Herten, D. P., Heintzmann, R., Cremer, C., Muller, C., Tinnefeld, P., Weston, K. D., Wolfrum, J., and Sauer, M. (2002) High-resolution colocalization of single dye molecules by fluorescence lifetime imaging microscopy. Anal. Chem. 74, 3511-3517.
15. Betzig, E., Patterson, G. H., Sougrat, R., Lindwasser, O. W., Olenych, S., Bonifacino, J. S., Davidson, M. W., Lippincott-Schwartz, J., and Hess, H. F. (2006) Imaging intracellular fluorescent proteins at nanometer resolution. Science 313, 1642-1645.
16. Hess, S. T., Girirajan, T. P., and Mason, M. D. (2006) Ultra-high resolution imaging by fluorescence photoactivation localization microscopy. Biophys. J. 91, 4258-4272.
17. Bailey, B., Farkas, D. L., Taylor, D. L., and Lanni, F. (1993) Enhancement of axial resolution in fluorescence microscopy by standing-wave excitation. Nature 366, 44-48.
18. Albrecht, B., Schweitzer, A., Failla, A. V., Edelmann, P., and Cremer, C. (2002) Spatially modulated illumination (SMI) microscopy allows axial distance resolution in the nanometer range. Appl. Opt. 41, 80-87.
19. Failla, A. V., Spoeri, U., Albrecht, B., Kroll, A., and Cremer, C. (2002) Nanosizing of fluorescent objects by spatially modulated illumination microscopy. Appl. Opt. 41, 7275-7283.
20. Failla, A. V., Albrecht, B., Spöri, U., Schweitzer, A., Kroll, A., Hildenbrand, G., Bach, M., and Cremer, C. (2003) Nanostructure analysis using spatially modulated illumination microscopy. Com-PlexUs 1, 77-88.
21. Spöri, U., Failla, A. V., and Cremer, C. (2004) Superresolution size determination in fluorescence microscopy: A comparison between spatially modulated illumination and confocal laser scanning microscopy. J. Appl. Phys. 95, 8436-8443.
22. Mathée, H., Baddeley, D., Wotzlaw, C., Fandrey, J., Cremer, C., and Birk, U. (2006) Nanostructure of specific chromatin regions and nuclear complexes. Histochem. Cell Biol. 125, 75-82.
23. Hildenbrand, G., Rapp, A., Spoeri, U., Wagner, C., Cremer, C., and Hausmann, M. Nano-sizing of specific gene domains in intact human cell nuclei by spatially modulated illumination light microscopy. (2005) Biophys. J. 88, 4312-4318.
24. Martin, S., Failla, A. V., Spori, U., Cremer, C., and Pombo, A. (2004) Measuring the size of biological nanostructures with spatially modulated illumination microscopy. Mol. Biol. Cell 15, 2449-2455.
25. Pombo, A., Jackson, D. A., Hollinshead, M., Wang, Z., Roeder, R. G., and Cook, P. R. (1999) Regional specialization in human nuclei: visualization of discrete sites of transcription by RNA polymerase III. EMBO J. 18, 2241-2253.
26. Wansink, D. G., Sibon, O. C., Cremers, F. F., van Driel, R., and de Jong, L. (1996) Ultrastructural localization of active genes in nuclei of A431 cells. J. Cell. Biochem. 62, 10-18.
27. Miller, O. L., Jr. and Bakken, A. H. (1972) Morphological studies of transcription. Acta Endocrinol. Suppl. 168, 155-177.
28. Jackson, D. A., Iborra, F. J., Manders, E. M., and Cook, P. R. (1998) Numbers and organization of RNA polymerases, nascent transcripts, and transcription units in HeLa nuclei. Mol. Biol. Cell 9, 1523-1536.