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Biomedical Optics Express

Biomedical Optics Express

  • Editor: Joseph A. Izatt
  • Vol. 4, Iss. 9 — Sep. 1, 2013
  • pp: 1654–1661

Aberrations and their correction in light-sheet microscopy: a low-dimensional parametrization

Diwakar Turaga and Timothy E. Holy  »View Author Affiliations

Biomedical Optics Express, Vol. 4, Issue 9, pp. 1654-1661 (2013)

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Light sheet microscopy allows rapid imaging of three-dimensional fluorescent samples, using illumination and detection axes that are orthogonal. For imaging large samples, this often forces the objective to be tilted relative to the sample’s surface; for samples that are not precisely matched to the immersion medium index, this tilt introduces aberrations. Here we calculate the nature of these aberrations for a simple tissue model, and show that a low-dimensional parametrization of these aberrations facilitates online correction via a deformable mirror without introduction of beads or other fiducial markers. We use this approach to demonstrate improved image quality in living tissue.

© 2013 OSA

OCIS Codes
(180.2520) Microscopy : Fluorescence microscopy
(110.1080) Imaging systems : Active or adaptive optics

ToC Category:

Original Manuscript: April 29, 2013
Revised Manuscript: June 20, 2013
Manuscript Accepted: June 30, 2013
Published: August 14, 2013

Diwakar Turaga and Timothy E. Holy, "Aberrations and their correction in light-sheet microscopy: a low-dimensional parametrization," Biomed. Opt. Express 4, 1654-1661 (2013)

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  1. J. J. J. Dirckx, L. C. Kuypers, and W. F. Decraemer, “Refractive index of tissue measured with confocal microscopy,” J. Biomed. Opt.10, 44014 (2005). [CrossRef] [PubMed]
  2. C. J. Sheppard and M. Gu, “Aberration compensation in confocal microscopy,” Appl. Opt.30, 3563–3568 (1991). [CrossRef] [PubMed]
  3. J. Porter, H. M. Queener, J. E. Lin, K. Thorn, and A. Awwal, Adaptive Optics for Vision Science (Wiley, 2006). [CrossRef]
  4. P. A. Santi, “Light sheet fluorescence microscopy: a review,” J. Histochem. Cytochem.59, 129–138 (2011). [CrossRef] [PubMed]
  5. T. F. Holekamp, D. Turaga, and T. E. Holy, “Fast three-dimensional fluorescence imaging of activity in neural populations by objective-coupled planar illumination microscopy,” Neuron57, 661–672 (2008). [CrossRef] [PubMed]
  6. D. Turaga and T. E. Holy, “Organization of vomeronasal sensory coding revealed by fast volumetric calcium imaging,” J. Neurosci.32, 1612–1621 (2012). [CrossRef] [PubMed]
  7. C. Bourgenot, C. D. Saunter, J. M. Taylor, J. M. Girkin, and G. D. Love, “3d adaptive optics in a light sheet microscope,” Opt. Express20, 13252–13261 (2012). [CrossRef] [PubMed]
  8. R. Jorand, G. Le Corre, J. Andilla, A. Maandhui, C. Frongia, V. Lobjois, B. Ducommun, and C. Lorenzo, “Deep and clear optical imaging of thick inhomogeneous samples,” PloS One7, e35795 (2012). [CrossRef] [PubMed]
  9. W. H. Press, S. A. Teukolsky, W. T. Vetterling, and B. P. Flannery, Numerical Recipes in C++: The Art of Scientific Computing, 3rd ed. (Cambridge University PressCambridge, 2007).
  10. D. Turaga and T. E. Holy, “Miniaturization and defocus correction for objective-coupled planar illumination microscopy,” Opt. Lett.33, 2302–2304 (2008). [CrossRef] [PubMed]
  11. M. Born and E. Wolf, Principles of Optics (Pergamon Press, 1980), 6th ed.
  12. J. L. F. de Meijere and C. H. F. Velzel, “Linear ray-propagation models in geometrical optics,” J. Opt. Soc. Am. A4, 2162–2165 (1987). [CrossRef]
  13. D. Turaga and T. E. Holy, “Image-based calibration of a deformable mirror in wide-field microscopy,” Appl. Opt.49, 2030–2040 (2010). [CrossRef] [PubMed]
  14. J. He, L. Ma, S. Kim, J. Nakai, and C. Yu, “Encoding gender and individual information in the mouse vomeronasal organ,” Science320, 535–538 (2008). [CrossRef] [PubMed]

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