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Optics Express

Optics Express

  • Editor: C. Martijn de Sterke
  • Vol. 19, Iss. 16 — Aug. 1, 2011
  • pp: 15009–15019

Sample drift correction in 3D fluorescence photoactivation localization microscopy

Michael J. Mlodzianoski, John M. Schreiner, Steven P. Callahan, Katarina Smolková, Andrea Dlasková, Jitka Šantorová, Petr Ježek, and Joerg Bewersdorf  »View Author Affiliations


Optics Express, Vol. 19, Issue 16, pp. 15009-15019 (2011)
http://dx.doi.org/10.1364/OE.19.015009


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Abstract

The recent development of diffraction-unlimited far-field fluorescence microscopy has overcome the classical resolution limit of ~250 nm of conventional light microscopy by about a factor of ten. The improved resolution, however, reveals not only biological structures at an unprecedented resolution, but is also susceptible to sample drift on a much finer scale than previously relevant. Without correction, sample drift leads to smeared images with decreased resolution, and in the worst case to misinterpretation of the imaged structures. This poses a problem especially for techniques such as Fluorescence Photoactivation Localization Microscopy (FPALM/PALM) or Stochastic Optical Reconstruction Microscopy (STORM), which often require minutes recording time. Here we discuss an approach that corrects for three-dimensional (3D) drift in images of fixed samples without the requirement for fiduciary markers or instrument modifications. Drift is determined by calculating the spatial cross-correlation function between subsets of localized particles imaged at different times. Correction down to ~5 nm precision is achieved despite the fact that different molecules are imaged in each frame. We demonstrate the performance of our drift correction algorithm with different simulated structures and analyze its dependence on particle density and localization precision. By imaging mitochondria with Biplane FPALM we show our algorithm’s feasibility in a practical application.

© 2011 OSA

OCIS Codes
(110.6880) Imaging systems : Three-dimensional image acquisition
(180.2520) Microscopy : Fluorescence microscopy
(180.6900) Microscopy : Three-dimensional microscopy

ToC Category:
Microscopy

History
Original Manuscript: May 31, 2011
Revised Manuscript: July 11, 2011
Manuscript Accepted: July 11, 2011
Published: July 20, 2011

Virtual Issues
Vol. 6, Iss. 9 Virtual Journal for Biomedical Optics

Citation
Michael J. Mlodzianoski, John M. Schreiner, Steven P. Callahan, Katarina Smolková, Andrea Dlasková, Jitka Šantorová, Petr Ježek, and Joerg Bewersdorf, "Sample drift correction in 3D fluorescence photoactivation localization microscopy," Opt. Express 19, 15009-15019 (2011)
http://www.opticsinfobase.org/oe/abstract.cfm?URI=oe-19-16-15009


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References

  1. D. Toomre and J. Bewersdorf, “A new wave of cellular imaging,” Annu. Rev. Cell Dev. Biol. 26(1), 285–314 (2010). [CrossRef] [PubMed]
  2. S. T. Hess, T. P. Girirajan, and M. D. Mason, “Ultra-high resolution imaging by fluorescence photoactivation localization microscopy,” Biophys. J. 91(11), 4258–4272 (2006). [CrossRef] [PubMed]
  3. E. Betzig, G. H. Patterson, R. Sougrat, O. W. Lindwasser, S. Olenych, J. S. Bonifacino, M. W. Davidson, J. Lippincott-Schwartz, and H. F. Hess, “Imaging intracellular fluorescent proteins at nanometer resolution,” Science 313(5793), 1642–1645 (2006). [CrossRef] [PubMed]
  4. M. J. Rust, M. Bates, and X. Zhuang, “Sub-diffraction-limit imaging by stochastic optical reconstruction microscopy (STORM),” Nat. Methods 3(10), 793–796 (2006). [CrossRef] [PubMed]
  5. M. F. Juette, T. J. Gould, M. D. Lessard, M. J. Mlodzianoski, B. S. Nagpure, B. T. Bennett, S. T. Hess, and J. Bewersdorf, “Three-dimensional sub-100 nm resolution fluorescence microscopy of thick samples,” Nat. Methods 5(6), 527–529 (2008). [CrossRef] [PubMed]
  6. B. Huang, W. Wang, M. Bates, and X. Zhuang, “Three-dimensional super-resolution imaging by stochastic optical reconstruction microscopy,” Science 319(5864), 810–813 (2008). [CrossRef] [PubMed]
  7. S. R. P. Pavani, A. Greengard, and R. Piestun, “Three-dimensional localization with nanometer accuracy using a detector-limited double-helix point spread function system,” Appl. Phys. Lett. 95(2), 021103–021103 (2009). [CrossRef]
  8. C. von Middendorff, A. Egner, C. Geisler, S. W. Hell, and A. Schönle, “Isotropic 3D Nanoscopy based on single emitter switching,” Opt. Express 16(25), 20774–20788 (2008). [CrossRef] [PubMed]
  9. G. Shtengel, J. A. Galbraith, C. G. Galbraith, J. Lippincott-Schwartz, J. M. Gillette, S. Manley, R. Sougrat, C. M. Waterman, P. Kanchanawong, M. W. Davidson, R. D. Fetter, and H. F. Hess, “Interferometric fluorescent super-resolution microscopy resolves 3D cellular ultrastructure,” Proc. Natl. Acad. Sci. U.S.A. 106(9), 3125–3130 (2009). [CrossRef] [PubMed]
  10. D. Aquino, A. Schonle, C. Geisler, C. V. Middendorff, C. A. Wurm, Y. Okamura, T. Lang, S. W. Hell, and A. Egner, “Two-color nanoscopy of three-dimensional volumes by 4Pi detection of stochastically switched fluorophores,” Nat. Methods 8(4), 353–359 (2011). [CrossRef] [PubMed]
  11. S. A. Jones, S.-H. Shim, J. He, and X. Zhuang, “Fast, three-dimensional super-resolution imaging of live cells,” Nat. Methods 8(6), 499–505 (2011). [CrossRef] [PubMed]
  12. T. J. Gould, V. V. Verkhusha, and S. T. Hess, “Imaging biological structures with fluorescence photoactivation localization microscopy,” Nat. Protoc. 4(3), 291–308 (2009). [CrossRef] [PubMed]
  13. H. Shroff, C. G. Galbraith, J. A. Galbraith, H. White, J. Gillette, S. Olenych, M. W. Davidson, and E. Betzig, “Dual-color superresolution imaging of genetically expressed probes within individual adhesion complexes,” Proc. Natl. Acad. Sci. U.S.A. 104(51), 20308–20313 (2007). [CrossRef] [PubMed]
  14. M. Bates, B. Huang, G. T. Dempsey, and X. Zhuang, “Multicolor super-resolution imaging with photo-switchable fluorescent probes,” Science 317(5845), 1749–1753 (2007). [CrossRef] [PubMed]
  15. B. Huang, S. A. Jones, B. Brandenburg, and X. Zhuang, “Whole-cell 3D STORM reveals interactions between cellular structures with nanometer-scale resolution,” Nat. Methods 5(12), 1047–1052 (2008). [CrossRef] [PubMed]
  16. B. Schaffer, W. Grogger, and G. Kothleitner, “Automated spatial drift correction for EFTEM image series,” Ultramicroscopy 102(1), 27–36 (2004). [CrossRef] [PubMed]
  17. T. Heil and H. Kohl, “Optimization of EFTEM image acquisition by using elastically filtered images for drift correction,” Ultramicroscopy 110(7), 745–753 (2010). [CrossRef] [PubMed]
  18. P. Rahe, R. Bechstein, and A. Kühnle, “Vertical and lateral drift corrections of scanning probe microscopy images,” J. Vac. Sci. Technol. B 28(3), (2010). [CrossRef]
  19. B. S. Salmons, D. R. Katz, and M. L. Trawick, “Correction of distortion due to thermal drift in scanning probe microscopy,” Ultramicroscopy 110(4), 339–349 (2010). [CrossRef] [PubMed]
  20. M. J. Mlodzianoski, M. F. Juette, G. L. Beane, and J. Bewersdorf, “Experimental characterization of 3D localization techniques for particle-tracking and super-resolution microscopy,” Opt. Express 17(10), 8264–8277 (2009). [CrossRef] [PubMed]

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