Abstract

We have investigated the effect of Airy illumination on the image quality and depth penetration of digitally scanned light-sheet microscopy in turbid neural tissue. We used Fourier analysis of images acquired using Gaussian and Airy light-sheets to assess their respective image quality versus penetration into the tissue. We observed a three-fold average improvement in image quality at 50 μm depth with the Airy light-sheet. We also used optical clearing to tune the scattering properties of the tissue and found that the improvement when using an Airy light-sheet is greater in the presence of stronger sample-induced aberrations. Finally, we used homogeneous resolution probes in these tissues to quantify absolute depth penetration in cleared samples with each beam type. The Airy light-sheet method extended depth penetration by 30% compared to a Gaussian light-sheet.

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References

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    [Crossref] [PubMed]
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2016 (5)

Z. Yang, P. Haslehurst, S. Scott, N. Emptage, and K. Dholakia, “A compact light-sheet microscope for the study of the mammalian central nervous system,” Scientific Reports 6, 26317 (2016).
[Crossref] [PubMed]

A. Curatolo, P. R. T. Munro, D. Lorenser, P. Sreekumar, C. C. Singe, B. F. Kennedy, and D. D. Sampson, “Quantifying the influence of Bessel beams on image quality in optical coherence tomography,” Scientific Reports 6, 23483 (2016).
[Crossref] [PubMed]

L. Silvestri, I. Constantini, L. Sacconi, and F. S. Pavone, “Clearing of fixed tissue: a review from a microscopist’s perspective,” J. Biomed. Opt. 21(8), 081205 (2016).
[Crossref] [PubMed]

A. K. Glaser, Y. Wang, and J. T. C. Liu, “Assessing the imaging performance of light sheet microscopies in highly scattering tissues,” Biomed. Opt. Express 7(2), 454–466 (2016).
[Crossref] [PubMed]

C. Gohn-Kreuz and A. Rohrbach, “Light-sheet microscopy generation in inhomogeneous media using self-reconstructing beams and the STED-principle,” Opt. Express 24(6), 5855–5865 (2016).
[Crossref] [PubMed]

2015 (5)

H.-U. Dodt, S. Saghafi, K. Becker, N. Jährling, C. Hahn, M. Pende, M. Wanis, and A. Niendorf, “Ultramicroscopy: development and outlook,” Neuorophotonics 2(4), 041407 (2015).
[Crossref]

Y. Chen and J. T. C. Liu, “Characterizing the beam steering and distortion of Gaussian and Bessel beams focused in tissues with microscopic heterogeneities,” Biomed. Opt. Express 6(4), 1318–1330 (2015).
[Crossref] [PubMed]

L. Zhang, F. Ye, M. Cao, D. Wei, P. Zhang, H. Gao, and F. Li, “Investigating the self-healing property of an optical Airy beam,” Opt. Lett. 40(21), 5066–5069 (2015).
[Crossref] [PubMed]

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
[Crossref] [PubMed]

R. Tomer, M. Lovett-Barron, I. Kauvar, A. Andalman, V. M. Burns, S. Sankaran, L. Grosenick, M. Broxton, S. Yang, and K. Deisseroth, “SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function,” Cell 163(7), 1796–1806 (2015).
[Crossref] [PubMed]

2014 (4)

T. Vettenburg, H. I. C. Dalgarno, J. Nylk, C. Coll-Lladó, D. E. K. Ferrier, T. Cizmar, F. J. Gunn-Moore, and K. Dholakia, “Light-sheet microscopy using an Airy beam,” Nat. Methods 11(5), 541–544 (2014).
[Crossref] [PubMed]

Z. Yang, M. Prokopas, J. Nylk, C. Coll-Lladó, F. J. Gunn-Moore, D. E. K. Ferrier, and K. Dholakia, “A compact Airy beam light sheet microscope with a tilted cylindrical lens,” Biomed. Opt. Express 5(10), 3434–3442 (2014).
[Crossref] [PubMed]

R. Tomer, L. Ye, B. Hsueh, and K. Deisseroth, “Advanced CLARITY for rapid and high-resolution imaging of intact tissues,” Nat. Protoc. 9(7), 1682–1697 (2014).
[Crossref] [PubMed]

Y. Qian and F. Wyrowski, “Evolution of self-healing characteristic on optical Airy beam,” Optik 125(15), 3876–3879 (2014).
[Crossref]

2013 (2)

F. Farhbach and A. Rohrbach, “Propagation stability of self-reconstructing Bessel beams enables contrast-enhanced imaging in thick media,” Nat. Commum. 3(632), 1646 (2013).

M. B. Ahrens, M. B. Orger, D. N. Robson, J. M. Li, and P. J. Keller, “Whole-brain functional imaging at cellular resolution using light-sheet microscopy,” Nat. Methods 10(5), 413–420 (2013).
[Crossref] [PubMed]

2012 (2)

2011 (2)

T. A. Planchon, L. Gao, D. E. Milkie, M. W. Davidson, J. A. Galbraith, C. G. Galbraith, and E. Betzig, “Rapid three-dimensional isotropic imaging of living cells using Bessel beam plane illumination,” Nat. Methods 8(5), 417–423 (2011).
[Crossref] [PubMed]

C. McClure, K. L. H. Cole, P. Wulff, M. Klugmann, and A. J. Murray, “Production and Titering of Recombinant Adeno-associated Viral Vectors,” J. Vis. Exp. 57, e3348 (2011).
[PubMed]

2010 (3)

N. Ji, E. Milkie, and E. Betzig, “Adaptive Optics via Pupil Segmentation for High-Resolution Imaging in Biological Tissues,” Nat. Methods 7(2), 141–147 (2010).
[Crossref]

F. O. Fahrbach, P. Simon, and A. Rohrbach, “Microscopy with self-reconstructing beams,” Nature Photon. 4(11), 780–785 (2010).
[Crossref]

M. Mazilu, D. J. Stevenson, F. Gunn-Moore, and K. Dholakia, “Light beats the spread: “non-diffracting” beams,” Laser Photon. Rev. 4(4), 529–547 (2010).
[Crossref]

2009 (1)

M. Levoy, Z. Zhang, and I. McDowall, “Recording and controlling the 4D light field in a microscope using microlens arrays,” J. Microsc. 235(2), 144–162 (2009).
[Crossref] [PubMed]

2008 (2)

J. Baumgartl, M. Mazilu, and K. Dholakia, “Optically mediated particle clearing using Airy wavepackets,” Nature Photon. 2(11), 675–678 (2008).
[Crossref]

J. Broky, G. A. Siviloglou, A. Dogariu, and D. N. Christodoulides, “Self-healing properties of optical Airy beams,” Opt. Express 16(17), 12880–12891 (2008).
[Crossref] [PubMed]

2004 (1)

J. Huisken, J. Swoger, F. Del Bene, J. Wittbrodt, and E. H. Stelzer, “Optical sectioning deep inside live embryos by selective plane illumination microscopy,” Science 305(5686), 1007–1009 (2004).
[Crossref] [PubMed]

1998 (1)

Z. Bouchal, J. Wagner, and M. Chlup, “Self-reconstruction of a distorted nondiffracting beam,” Opt. Commun. 151(4–6), 207–211 (1998).
[Crossref]

1992 (1)

Aggarwal, S.

J. Nylk, K. McCluskey, S. Aggarwal, J. A. Tello, and K. Dholakia, “Data underpinning: Enhancement of image quality and imaging depth with Airy light-sheet microscopy in cleared and non-cleared neural tissue,” http://dx.doi.org/10.17630/53f16b29-5d08-4aaa-ace3-0461b0dd0713

Ahrens, M. B.

M. B. Ahrens, M. B. Orger, D. N. Robson, J. M. Li, and P. J. Keller, “Whole-brain functional imaging at cellular resolution using light-sheet microscopy,” Nat. Methods 10(5), 413–420 (2013).
[Crossref] [PubMed]

Allegra Mascaro, A. L.

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
[Crossref] [PubMed]

Andalman, A.

R. Tomer, M. Lovett-Barron, I. Kauvar, A. Andalman, V. M. Burns, S. Sankaran, L. Grosenick, M. Broxton, S. Yang, and K. Deisseroth, “SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function,” Cell 163(7), 1796–1806 (2015).
[Crossref] [PubMed]

Artigas, D.

Baumgartl, J.

J. Baumgartl, M. Mazilu, and K. Dholakia, “Optically mediated particle clearing using Airy wavepackets,” Nature Photon. 2(11), 675–678 (2008).
[Crossref]

Becker, K.

H.-U. Dodt, S. Saghafi, K. Becker, N. Jährling, C. Hahn, M. Pende, M. Wanis, and A. Niendorf, “Ultramicroscopy: development and outlook,” Neuorophotonics 2(4), 041407 (2015).
[Crossref]

Betzig, E.

T. A. Planchon, L. Gao, D. E. Milkie, M. W. Davidson, J. A. Galbraith, C. G. Galbraith, and E. Betzig, “Rapid three-dimensional isotropic imaging of living cells using Bessel beam plane illumination,” Nat. Methods 8(5), 417–423 (2011).
[Crossref] [PubMed]

N. Ji, E. Milkie, and E. Betzig, “Adaptive Optics via Pupil Segmentation for High-Resolution Imaging in Biological Tissues,” Nat. Methods 7(2), 141–147 (2010).
[Crossref]

Bouchal, Z.

Z. Bouchal, J. Wagner, and M. Chlup, “Self-reconstruction of a distorted nondiffracting beam,” Opt. Commun. 151(4–6), 207–211 (1998).
[Crossref]

Broky, J.

Brown, D. L.

Broxton, M.

R. Tomer, M. Lovett-Barron, I. Kauvar, A. Andalman, V. M. Burns, S. Sankaran, L. Grosenick, M. Broxton, S. Yang, and K. Deisseroth, “SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function,” Cell 163(7), 1796–1806 (2015).
[Crossref] [PubMed]

Burns, V. M.

R. Tomer, M. Lovett-Barron, I. Kauvar, A. Andalman, V. M. Burns, S. Sankaran, L. Grosenick, M. Broxton, S. Yang, and K. Deisseroth, “SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function,” Cell 163(7), 1796–1806 (2015).
[Crossref] [PubMed]

Cao, M.

Chen, R.

X. Chu, G. Zhou, and R. Chen, “Analytical study of the self-healing property of Airy beams,” Phys. Rev. A 85(1), 013815 (2012).
[Crossref]

Chen, Y.

Chlup, M.

Z. Bouchal, J. Wagner, and M. Chlup, “Self-reconstruction of a distorted nondiffracting beam,” Opt. Commun. 151(4–6), 207–211 (1998).
[Crossref]

Christodoulides, D. N.

Chu, X.

X. Chu, G. Zhou, and R. Chen, “Analytical study of the self-healing property of Airy beams,” Phys. Rev. A 85(1), 013815 (2012).
[Crossref]

Cizmar, T.

T. Vettenburg, H. I. C. Dalgarno, J. Nylk, C. Coll-Lladó, D. E. K. Ferrier, T. Cizmar, F. J. Gunn-Moore, and K. Dholakia, “Light-sheet microscopy using an Airy beam,” Nat. Methods 11(5), 541–544 (2014).
[Crossref] [PubMed]

Cole, K. L. H.

C. McClure, K. L. H. Cole, P. Wulff, M. Klugmann, and A. J. Murray, “Production and Titering of Recombinant Adeno-associated Viral Vectors,” J. Vis. Exp. 57, e3348 (2011).
[PubMed]

Coll-Lladó, C.

T. Vettenburg, H. I. C. Dalgarno, J. Nylk, C. Coll-Lladó, D. E. K. Ferrier, T. Cizmar, F. J. Gunn-Moore, and K. Dholakia, “Light-sheet microscopy using an Airy beam,” Nat. Methods 11(5), 541–544 (2014).
[Crossref] [PubMed]

Z. Yang, M. Prokopas, J. Nylk, C. Coll-Lladó, F. J. Gunn-Moore, D. E. K. Ferrier, and K. Dholakia, “A compact Airy beam light sheet microscope with a tilted cylindrical lens,” Biomed. Opt. Express 5(10), 3434–3442 (2014).
[Crossref] [PubMed]

Constantini, I.

L. Silvestri, I. Constantini, L. Sacconi, and F. S. Pavone, “Clearing of fixed tissue: a review from a microscopist’s perspective,” J. Biomed. Opt. 21(8), 081205 (2016).
[Crossref] [PubMed]

Conti, V.

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
[Crossref] [PubMed]

Costantini, I.

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
[Crossref] [PubMed]

Curatolo, A.

A. Curatolo, P. R. T. Munro, D. Lorenser, P. Sreekumar, C. C. Singe, B. F. Kennedy, and D. D. Sampson, “Quantifying the influence of Bessel beams on image quality in optical coherence tomography,” Scientific Reports 6, 23483 (2016).
[Crossref] [PubMed]

Dalgarno, H. I. C.

T. Vettenburg, H. I. C. Dalgarno, J. Nylk, C. Coll-Lladó, D. E. K. Ferrier, T. Cizmar, F. J. Gunn-Moore, and K. Dholakia, “Light-sheet microscopy using an Airy beam,” Nat. Methods 11(5), 541–544 (2014).
[Crossref] [PubMed]

Davidson, M. W.

T. A. Planchon, L. Gao, D. E. Milkie, M. W. Davidson, J. A. Galbraith, C. G. Galbraith, and E. Betzig, “Rapid three-dimensional isotropic imaging of living cells using Bessel beam plane illumination,” Nat. Methods 8(5), 417–423 (2011).
[Crossref] [PubMed]

Deisseroth, K.

R. Tomer, M. Lovett-Barron, I. Kauvar, A. Andalman, V. M. Burns, S. Sankaran, L. Grosenick, M. Broxton, S. Yang, and K. Deisseroth, “SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function,” Cell 163(7), 1796–1806 (2015).
[Crossref] [PubMed]

R. Tomer, L. Ye, B. Hsueh, and K. Deisseroth, “Advanced CLARITY for rapid and high-resolution imaging of intact tissues,” Nat. Protoc. 9(7), 1682–1697 (2014).
[Crossref] [PubMed]

Del Bene, F.

J. Huisken, J. Swoger, F. Del Bene, J. Wittbrodt, and E. H. Stelzer, “Optical sectioning deep inside live embryos by selective plane illumination microscopy,” Science 305(5686), 1007–1009 (2004).
[Crossref] [PubMed]

Dholakia, K.

Z. Yang, P. Haslehurst, S. Scott, N. Emptage, and K. Dholakia, “A compact light-sheet microscope for the study of the mammalian central nervous system,” Scientific Reports 6, 26317 (2016).
[Crossref] [PubMed]

T. Vettenburg, H. I. C. Dalgarno, J. Nylk, C. Coll-Lladó, D. E. K. Ferrier, T. Cizmar, F. J. Gunn-Moore, and K. Dholakia, “Light-sheet microscopy using an Airy beam,” Nat. Methods 11(5), 541–544 (2014).
[Crossref] [PubMed]

Z. Yang, M. Prokopas, J. Nylk, C. Coll-Lladó, F. J. Gunn-Moore, D. E. K. Ferrier, and K. Dholakia, “A compact Airy beam light sheet microscope with a tilted cylindrical lens,” Biomed. Opt. Express 5(10), 3434–3442 (2014).
[Crossref] [PubMed]

M. Mazilu, D. J. Stevenson, F. Gunn-Moore, and K. Dholakia, “Light beats the spread: “non-diffracting” beams,” Laser Photon. Rev. 4(4), 529–547 (2010).
[Crossref]

J. Baumgartl, M. Mazilu, and K. Dholakia, “Optically mediated particle clearing using Airy wavepackets,” Nature Photon. 2(11), 675–678 (2008).
[Crossref]

J. Nylk, K. McCluskey, S. Aggarwal, J. A. Tello, and K. Dholakia, “Data underpinning: Enhancement of image quality and imaging depth with Airy light-sheet microscopy in cleared and non-cleared neural tissue,” http://dx.doi.org/10.17630/53f16b29-5d08-4aaa-ace3-0461b0dd0713

Di Giovanna, A. P.

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
[Crossref] [PubMed]

Dodt, H.-U.

H.-U. Dodt, S. Saghafi, K. Becker, N. Jährling, C. Hahn, M. Pende, M. Wanis, and A. Niendorf, “Ultramicroscopy: development and outlook,” Neuorophotonics 2(4), 041407 (2015).
[Crossref]

Dogariu, A.

Eberly, J. H.

Emptage, N.

Z. Yang, P. Haslehurst, S. Scott, N. Emptage, and K. Dholakia, “A compact light-sheet microscope for the study of the mammalian central nervous system,” Scientific Reports 6, 26317 (2016).
[Crossref] [PubMed]

Fahrbach, F. O.

F. O. Fahrbach, P. Simon, and A. Rohrbach, “Microscopy with self-reconstructing beams,” Nature Photon. 4(11), 780–785 (2010).
[Crossref]

Farhbach, F.

F. Farhbach and A. Rohrbach, “Propagation stability of self-reconstructing Bessel beams enables contrast-enhanced imaging in thick media,” Nat. Commum. 3(632), 1646 (2013).

Ferrier, D. E. K.

T. Vettenburg, H. I. C. Dalgarno, J. Nylk, C. Coll-Lladó, D. E. K. Ferrier, T. Cizmar, F. J. Gunn-Moore, and K. Dholakia, “Light-sheet microscopy using an Airy beam,” Nat. Methods 11(5), 541–544 (2014).
[Crossref] [PubMed]

Z. Yang, M. Prokopas, J. Nylk, C. Coll-Lladó, F. J. Gunn-Moore, D. E. K. Ferrier, and K. Dholakia, “A compact Airy beam light sheet microscope with a tilted cylindrical lens,” Biomed. Opt. Express 5(10), 3434–3442 (2014).
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Galbraith, C. G.

T. A. Planchon, L. Gao, D. E. Milkie, M. W. Davidson, J. A. Galbraith, C. G. Galbraith, and E. Betzig, “Rapid three-dimensional isotropic imaging of living cells using Bessel beam plane illumination,” Nat. Methods 8(5), 417–423 (2011).
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Galbraith, J. A.

T. A. Planchon, L. Gao, D. E. Milkie, M. W. Davidson, J. A. Galbraith, C. G. Galbraith, and E. Betzig, “Rapid three-dimensional isotropic imaging of living cells using Bessel beam plane illumination,” Nat. Methods 8(5), 417–423 (2011).
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Gao, H.

Gao, L.

T. A. Planchon, L. Gao, D. E. Milkie, M. W. Davidson, J. A. Galbraith, C. G. Galbraith, and E. Betzig, “Rapid three-dimensional isotropic imaging of living cells using Bessel beam plane illumination,” Nat. Methods 8(5), 417–423 (2011).
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Ghobril, J. P.

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
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Glaser, A. K.

Gohn-Kreuz, C.

Grosenick, L.

R. Tomer, M. Lovett-Barron, I. Kauvar, A. Andalman, V. M. Burns, S. Sankaran, L. Grosenick, M. Broxton, S. Yang, and K. Deisseroth, “SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function,” Cell 163(7), 1796–1806 (2015).
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Gualda, E. J.

Guerrini, R.

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
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Gunn-Moore, F.

M. Mazilu, D. J. Stevenson, F. Gunn-Moore, and K. Dholakia, “Light beats the spread: “non-diffracting” beams,” Laser Photon. Rev. 4(4), 529–547 (2010).
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Gunn-Moore, F. J.

Z. Yang, M. Prokopas, J. Nylk, C. Coll-Lladó, F. J. Gunn-Moore, D. E. K. Ferrier, and K. Dholakia, “A compact Airy beam light sheet microscope with a tilted cylindrical lens,” Biomed. Opt. Express 5(10), 3434–3442 (2014).
[Crossref] [PubMed]

T. Vettenburg, H. I. C. Dalgarno, J. Nylk, C. Coll-Lladó, D. E. K. Ferrier, T. Cizmar, F. J. Gunn-Moore, and K. Dholakia, “Light-sheet microscopy using an Airy beam,” Nat. Methods 11(5), 541–544 (2014).
[Crossref] [PubMed]

Hahn, C.

H.-U. Dodt, S. Saghafi, K. Becker, N. Jährling, C. Hahn, M. Pende, M. Wanis, and A. Niendorf, “Ultramicroscopy: development and outlook,” Neuorophotonics 2(4), 041407 (2015).
[Crossref]

Haslehurst, P.

Z. Yang, P. Haslehurst, S. Scott, N. Emptage, and K. Dholakia, “A compact light-sheet microscope for the study of the mammalian central nervous system,” Scientific Reports 6, 26317 (2016).
[Crossref] [PubMed]

Hsueh, B.

R. Tomer, L. Ye, B. Hsueh, and K. Deisseroth, “Advanced CLARITY for rapid and high-resolution imaging of intact tissues,” Nat. Protoc. 9(7), 1682–1697 (2014).
[Crossref] [PubMed]

Huang, H.

Huisken, J.

J. Huisken, J. Swoger, F. Del Bene, J. Wittbrodt, and E. H. Stelzer, “Optical sectioning deep inside live embryos by selective plane illumination microscopy,” Science 305(5686), 1007–1009 (2004).
[Crossref] [PubMed]

Iannello, G.

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
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Jährling, N.

H.-U. Dodt, S. Saghafi, K. Becker, N. Jährling, C. Hahn, M. Pende, M. Wanis, and A. Niendorf, “Ultramicroscopy: development and outlook,” Neuorophotonics 2(4), 041407 (2015).
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Ji, N.

N. Ji, E. Milkie, and E. Betzig, “Adaptive Optics via Pupil Segmentation for High-Resolution Imaging in Biological Tissues,” Nat. Methods 7(2), 141–147 (2010).
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Kauvar, I.

R. Tomer, M. Lovett-Barron, I. Kauvar, A. Andalman, V. M. Burns, S. Sankaran, L. Grosenick, M. Broxton, S. Yang, and K. Deisseroth, “SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function,” Cell 163(7), 1796–1806 (2015).
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Keller, P. J.

M. B. Ahrens, M. B. Orger, D. N. Robson, J. M. Li, and P. J. Keller, “Whole-brain functional imaging at cellular resolution using light-sheet microscopy,” Nat. Methods 10(5), 413–420 (2013).
[Crossref] [PubMed]

Kennedy, B. F.

A. Curatolo, P. R. T. Munro, D. Lorenser, P. Sreekumar, C. C. Singe, B. F. Kennedy, and D. D. Sampson, “Quantifying the influence of Bessel beams on image quality in optical coherence tomography,” Scientific Reports 6, 23483 (2016).
[Crossref] [PubMed]

Klugmann, M.

C. McClure, K. L. H. Cole, P. Wulff, M. Klugmann, and A. J. Murray, “Production and Titering of Recombinant Adeno-associated Viral Vectors,” J. Vis. Exp. 57, e3348 (2011).
[PubMed]

Levoy, M.

M. Levoy, Z. Zhang, and I. McDowall, “Recording and controlling the 4D light field in a microscope using microlens arrays,” J. Microsc. 235(2), 144–162 (2009).
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Li, F.

Li, J. M.

M. B. Ahrens, M. B. Orger, D. N. Robson, J. M. Li, and P. J. Keller, “Whole-brain functional imaging at cellular resolution using light-sheet microscopy,” Nat. Methods 10(5), 413–420 (2013).
[Crossref] [PubMed]

Licea-Rodriguez, J.

Lin, Y.

Liu, J. T. C.

Lorenser, D.

A. Curatolo, P. R. T. Munro, D. Lorenser, P. Sreekumar, C. C. Singe, B. F. Kennedy, and D. D. Sampson, “Quantifying the influence of Bessel beams on image quality in optical coherence tomography,” Scientific Reports 6, 23483 (2016).
[Crossref] [PubMed]

Lovett-Barron, M.

R. Tomer, M. Lovett-Barron, I. Kauvar, A. Andalman, V. M. Burns, S. Sankaran, L. Grosenick, M. Broxton, S. Yang, and K. Deisseroth, “SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function,” Cell 163(7), 1796–1806 (2015).
[Crossref] [PubMed]

Loza-Alvarez, P.

Markram, H.

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
[Crossref] [PubMed]

Mayer, J.

Mazilu, M.

M. Mazilu, D. J. Stevenson, F. Gunn-Moore, and K. Dholakia, “Light beats the spread: “non-diffracting” beams,” Laser Photon. Rev. 4(4), 529–547 (2010).
[Crossref]

J. Baumgartl, M. Mazilu, and K. Dholakia, “Optically mediated particle clearing using Airy wavepackets,” Nature Photon. 2(11), 675–678 (2008).
[Crossref]

McClure, C.

C. McClure, K. L. H. Cole, P. Wulff, M. Klugmann, and A. J. Murray, “Production and Titering of Recombinant Adeno-associated Viral Vectors,” J. Vis. Exp. 57, e3348 (2011).
[PubMed]

McCluskey, K.

J. Nylk, K. McCluskey, S. Aggarwal, J. A. Tello, and K. Dholakia, “Data underpinning: Enhancement of image quality and imaging depth with Airy light-sheet microscopy in cleared and non-cleared neural tissue,” http://dx.doi.org/10.17630/53f16b29-5d08-4aaa-ace3-0461b0dd0713

McDowall, I.

M. Levoy, Z. Zhang, and I. McDowall, “Recording and controlling the 4D light field in a microscope using microlens arrays,” J. Microsc. 235(2), 144–162 (2009).
[Crossref] [PubMed]

Milkie, D. E.

T. A. Planchon, L. Gao, D. E. Milkie, M. W. Davidson, J. A. Galbraith, C. G. Galbraith, and E. Betzig, “Rapid three-dimensional isotropic imaging of living cells using Bessel beam plane illumination,” Nat. Methods 8(5), 417–423 (2011).
[Crossref] [PubMed]

Milkie, E.

N. Ji, E. Milkie, and E. Betzig, “Adaptive Optics via Pupil Segmentation for High-Resolution Imaging in Biological Tissues,” Nat. Methods 7(2), 141–147 (2010).
[Crossref]

Müllenbroich, M. C.

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
[Crossref] [PubMed]

Munro, P. R. T.

A. Curatolo, P. R. T. Munro, D. Lorenser, P. Sreekumar, C. C. Singe, B. F. Kennedy, and D. D. Sampson, “Quantifying the influence of Bessel beams on image quality in optical coherence tomography,” Scientific Reports 6, 23483 (2016).
[Crossref] [PubMed]

Murray, A. J.

C. McClure, K. L. H. Cole, P. Wulff, M. Klugmann, and A. J. Murray, “Production and Titering of Recombinant Adeno-associated Viral Vectors,” J. Vis. Exp. 57, e3348 (2011).
[PubMed]

Niendorf, A.

H.-U. Dodt, S. Saghafi, K. Becker, N. Jährling, C. Hahn, M. Pende, M. Wanis, and A. Niendorf, “Ultramicroscopy: development and outlook,” Neuorophotonics 2(4), 041407 (2015).
[Crossref]

Nylk, J.

T. Vettenburg, H. I. C. Dalgarno, J. Nylk, C. Coll-Lladó, D. E. K. Ferrier, T. Cizmar, F. J. Gunn-Moore, and K. Dholakia, “Light-sheet microscopy using an Airy beam,” Nat. Methods 11(5), 541–544 (2014).
[Crossref] [PubMed]

Z. Yang, M. Prokopas, J. Nylk, C. Coll-Lladó, F. J. Gunn-Moore, D. E. K. Ferrier, and K. Dholakia, “A compact Airy beam light sheet microscope with a tilted cylindrical lens,” Biomed. Opt. Express 5(10), 3434–3442 (2014).
[Crossref] [PubMed]

J. Nylk, K. McCluskey, S. Aggarwal, J. A. Tello, and K. Dholakia, “Data underpinning: Enhancement of image quality and imaging depth with Airy light-sheet microscopy in cleared and non-cleared neural tissue,” http://dx.doi.org/10.17630/53f16b29-5d08-4aaa-ace3-0461b0dd0713

Olarte, O. E.

Onofri, L.

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
[Crossref] [PubMed]

Orger, M. B.

M. B. Ahrens, M. B. Orger, D. N. Robson, J. M. Li, and P. J. Keller, “Whole-brain functional imaging at cellular resolution using light-sheet microscopy,” Nat. Methods 10(5), 413–420 (2013).
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Palero, J. A.

Pavone, F. S.

L. Silvestri, I. Constantini, L. Sacconi, and F. S. Pavone, “Clearing of fixed tissue: a review from a microscopist’s perspective,” J. Biomed. Opt. 21(8), 081205 (2016).
[Crossref] [PubMed]

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
[Crossref] [PubMed]

Pende, M.

H.-U. Dodt, S. Saghafi, K. Becker, N. Jährling, C. Hahn, M. Pende, M. Wanis, and A. Niendorf, “Ultramicroscopy: development and outlook,” Neuorophotonics 2(4), 041407 (2015).
[Crossref]

Planchon, T. A.

T. A. Planchon, L. Gao, D. E. Milkie, M. W. Davidson, J. A. Galbraith, C. G. Galbraith, and E. Betzig, “Rapid three-dimensional isotropic imaging of living cells using Bessel beam plane illumination,” Nat. Methods 8(5), 417–423 (2011).
[Crossref] [PubMed]

Prokopas, M.

Qian, Y.

Y. Qian and F. Wyrowski, “Evolution of self-healing characteristic on optical Airy beam,” Optik 125(15), 3876–3879 (2014).
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Rangel-Rojo, R.

Robson, D. N.

M. B. Ahrens, M. B. Orger, D. N. Robson, J. M. Li, and P. J. Keller, “Whole-brain functional imaging at cellular resolution using light-sheet microscopy,” Nat. Methods 10(5), 413–420 (2013).
[Crossref] [PubMed]

Rocha-Mendoza, I.

Rohrbach, A.

C. Gohn-Kreuz and A. Rohrbach, “Light-sheet microscopy generation in inhomogeneous media using self-reconstructing beams and the STED-principle,” Opt. Express 24(6), 5855–5865 (2016).
[Crossref] [PubMed]

F. Farhbach and A. Rohrbach, “Propagation stability of self-reconstructing Bessel beams enables contrast-enhanced imaging in thick media,” Nat. Commum. 3(632), 1646 (2013).

F. O. Fahrbach, P. Simon, and A. Rohrbach, “Microscopy with self-reconstructing beams,” Nature Photon. 4(11), 780–785 (2010).
[Crossref]

Sacconi, L.

L. Silvestri, I. Constantini, L. Sacconi, and F. S. Pavone, “Clearing of fixed tissue: a review from a microscopist’s perspective,” J. Biomed. Opt. 21(8), 081205 (2016).
[Crossref] [PubMed]

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
[Crossref] [PubMed]

Saghafi, S.

H.-U. Dodt, S. Saghafi, K. Becker, N. Jährling, C. Hahn, M. Pende, M. Wanis, and A. Niendorf, “Ultramicroscopy: development and outlook,” Neuorophotonics 2(4), 041407 (2015).
[Crossref]

Sampson, D. D.

A. Curatolo, P. R. T. Munro, D. Lorenser, P. Sreekumar, C. C. Singe, B. F. Kennedy, and D. D. Sampson, “Quantifying the influence of Bessel beams on image quality in optical coherence tomography,” Scientific Reports 6, 23483 (2016).
[Crossref] [PubMed]

Sankaran, S.

R. Tomer, M. Lovett-Barron, I. Kauvar, A. Andalman, V. M. Burns, S. Sankaran, L. Grosenick, M. Broxton, S. Yang, and K. Deisseroth, “SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function,” Cell 163(7), 1796–1806 (2015).
[Crossref] [PubMed]

Scott, S.

Z. Yang, P. Haslehurst, S. Scott, N. Emptage, and K. Dholakia, “A compact light-sheet microscope for the study of the mammalian central nervous system,” Scientific Reports 6, 26317 (2016).
[Crossref] [PubMed]

Seka, W.

Sharp, J.

Silvestri, L.

L. Silvestri, I. Constantini, L. Sacconi, and F. S. Pavone, “Clearing of fixed tissue: a review from a microscopist’s perspective,” J. Biomed. Opt. 21(8), 081205 (2016).
[Crossref] [PubMed]

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
[Crossref] [PubMed]

Simon, P.

F. O. Fahrbach, P. Simon, and A. Rohrbach, “Microscopy with self-reconstructing beams,” Nature Photon. 4(11), 780–785 (2010).
[Crossref]

Singe, C. C.

A. Curatolo, P. R. T. Munro, D. Lorenser, P. Sreekumar, C. C. Singe, B. F. Kennedy, and D. D. Sampson, “Quantifying the influence of Bessel beams on image quality in optical coherence tomography,” Scientific Reports 6, 23483 (2016).
[Crossref] [PubMed]

Siviloglou, G. A.

Sreekumar, P.

A. Curatolo, P. R. T. Munro, D. Lorenser, P. Sreekumar, C. C. Singe, B. F. Kennedy, and D. D. Sampson, “Quantifying the influence of Bessel beams on image quality in optical coherence tomography,” Scientific Reports 6, 23483 (2016).
[Crossref] [PubMed]

Stelzer, E. H.

J. Huisken, J. Swoger, F. Del Bene, J. Wittbrodt, and E. H. Stelzer, “Optical sectioning deep inside live embryos by selective plane illumination microscopy,” Science 305(5686), 1007–1009 (2004).
[Crossref] [PubMed]

Stevenson, D. J.

M. Mazilu, D. J. Stevenson, F. Gunn-Moore, and K. Dholakia, “Light beats the spread: “non-diffracting” beams,” Laser Photon. Rev. 4(4), 529–547 (2010).
[Crossref]

Swoger, J.

Tello, J. A.

J. Nylk, K. McCluskey, S. Aggarwal, J. A. Tello, and K. Dholakia, “Data underpinning: Enhancement of image quality and imaging depth with Airy light-sheet microscopy in cleared and non-cleared neural tissue,” http://dx.doi.org/10.17630/53f16b29-5d08-4aaa-ace3-0461b0dd0713

Tomer, R.

R. Tomer, M. Lovett-Barron, I. Kauvar, A. Andalman, V. M. Burns, S. Sankaran, L. Grosenick, M. Broxton, S. Yang, and K. Deisseroth, “SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function,” Cell 163(7), 1796–1806 (2015).
[Crossref] [PubMed]

R. Tomer, L. Ye, B. Hsueh, and K. Deisseroth, “Advanced CLARITY for rapid and high-resolution imaging of intact tissues,” Nat. Protoc. 9(7), 1682–1697 (2014).
[Crossref] [PubMed]

Vanzi, F.

I. Costantini, J. P. Ghobril, A. P. Di Giovanna, A. L. Allegra Mascaro, L. Silvestri, M. C. Müllenbroich, L. Onofri, V. Conti, F. Vanzi, L. Sacconi, R. Guerrini, H. Markram, G. Iannello, and F. S. Pavone, “A versatile clearing agent for multi-modal brain imaging,” Sci. Rep. 5, 9808 (2015).
[Crossref] [PubMed]

Vettenburg, T.

T. Vettenburg, H. I. C. Dalgarno, J. Nylk, C. Coll-Lladó, D. E. K. Ferrier, T. Cizmar, F. J. Gunn-Moore, and K. Dholakia, “Light-sheet microscopy using an Airy beam,” Nat. Methods 11(5), 541–544 (2014).
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Wagner, J.

Z. Bouchal, J. Wagner, and M. Chlup, “Self-reconstruction of a distorted nondiffracting beam,” Opt. Commun. 151(4–6), 207–211 (1998).
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Wang, Y.

Wanis, M.

H.-U. Dodt, S. Saghafi, K. Becker, N. Jährling, C. Hahn, M. Pende, M. Wanis, and A. Niendorf, “Ultramicroscopy: development and outlook,” Neuorophotonics 2(4), 041407 (2015).
[Crossref]

Wei, D.

Wittbrodt, J.

J. Huisken, J. Swoger, F. Del Bene, J. Wittbrodt, and E. H. Stelzer, “Optical sectioning deep inside live embryos by selective plane illumination microscopy,” Science 305(5686), 1007–1009 (2004).
[Crossref] [PubMed]

Wulff, P.

C. McClure, K. L. H. Cole, P. Wulff, M. Klugmann, and A. J. Murray, “Production and Titering of Recombinant Adeno-associated Viral Vectors,” J. Vis. Exp. 57, e3348 (2011).
[PubMed]

Wyrowski, F.

Y. Qian and F. Wyrowski, “Evolution of self-healing characteristic on optical Airy beam,” Optik 125(15), 3876–3879 (2014).
[Crossref]

Yang, S.

R. Tomer, M. Lovett-Barron, I. Kauvar, A. Andalman, V. M. Burns, S. Sankaran, L. Grosenick, M. Broxton, S. Yang, and K. Deisseroth, “SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function,” Cell 163(7), 1796–1806 (2015).
[Crossref] [PubMed]

Yang, Z.

Z. Yang, P. Haslehurst, S. Scott, N. Emptage, and K. Dholakia, “A compact light-sheet microscope for the study of the mammalian central nervous system,” Scientific Reports 6, 26317 (2016).
[Crossref] [PubMed]

Z. Yang, M. Prokopas, J. Nylk, C. Coll-Lladó, F. J. Gunn-Moore, D. E. K. Ferrier, and K. Dholakia, “A compact Airy beam light sheet microscope with a tilted cylindrical lens,” Biomed. Opt. Express 5(10), 3434–3442 (2014).
[Crossref] [PubMed]

Ye, F.

Ye, L.

R. Tomer, L. Ye, B. Hsueh, and K. Deisseroth, “Advanced CLARITY for rapid and high-resolution imaging of intact tissues,” Nat. Protoc. 9(7), 1682–1697 (2014).
[Crossref] [PubMed]

Zhang, L.

Zhang, P.

Zhang, Z.

M. Levoy, Z. Zhang, and I. McDowall, “Recording and controlling the 4D light field in a microscope using microlens arrays,” J. Microsc. 235(2), 144–162 (2009).
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Zhou, G.

X. Chu, G. Zhou, and R. Chen, “Analytical study of the self-healing property of Airy beams,” Phys. Rev. A 85(1), 013815 (2012).
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Appl. Opt. (1)

Biomed. Opt. Express (4)

Cell (1)

R. Tomer, M. Lovett-Barron, I. Kauvar, A. Andalman, V. M. Burns, S. Sankaran, L. Grosenick, M. Broxton, S. Yang, and K. Deisseroth, “SPED Light Sheet Microscopy: Fast Mapping of Biological System Structure and Function,” Cell 163(7), 1796–1806 (2015).
[Crossref] [PubMed]

J. Biomed. Opt. (1)

L. Silvestri, I. Constantini, L. Sacconi, and F. S. Pavone, “Clearing of fixed tissue: a review from a microscopist’s perspective,” J. Biomed. Opt. 21(8), 081205 (2016).
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J. Microsc. (1)

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J. Nylk, K. McCluskey, S. Aggarwal, J. A. Tello, and K. Dholakia, “Data underpinning: Enhancement of image quality and imaging depth with Airy light-sheet microscopy in cleared and non-cleared neural tissue,” http://dx.doi.org/10.17630/53f16b29-5d08-4aaa-ace3-0461b0dd0713

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Figures (6)

Fig. 1
Fig. 1

Schematic of the light-sheet microscope objectives, oriented 45° to the vertical, and sample slide. Primed coordinates: tissue reference frame. Unprimed coordinates: microscope reference frame. y = y′, while x and z are tilted 45° relative to x′ and z′ such that the focal plane of the illumination objective (left) is parallel to xy, and z is parallel to the optical axis of the detection objective.

Fig. 2
Fig. 2

(a,b) Maximum intensity projections (x′z′ view) of fluorescent neurons in 400 μm thick, non-cleared mouse brain tissue section acquired using GLSM (a) and ALSM (b). Dashed white lines indicate tissue surface. (c,d) Apodized versions of (a,b) showing only the region around Gaussian beam focus which is used for analysis. This dataset can be accessed at [23].

Fig. 3
Fig. 3

Explanation of Fourier analysis method. (a–j) Plots of normalised spectral magnitude, Sn (z′), versus tissue depth for datasets shown in Fig. 2, acquired with Gaussian (dashed blue) and Airy (dotted green) light-sheet illumination within selected spectral windows, (a) 0 – 10% 2NA/λ – (j) 90 – 100% 2NA/λ. The enhancement factor, EFn (z′), (red; second axis) is also plotted. (k) Illustration of spectral windows used to segment the data for plots (a–j). The dashed circle corresponds to a spatial frequency of 2NA/λ. The annular regions each cover 10% of this frequency range. (l) shows the average enhancement factor over high-frequency spectral bands, EFHF (z′), (60 – 100% 2NA/λ). Dashed line in (l) shows a linear fit to the data, equation shown on plot.

Fig. 4
Fig. 4

(a,b) Maximum intensity projections (x′z′ view) of fluorescent neurons in 400 μm thick, cleared mouse brain tissue section acquired using GLSM (a) and ALSM (b). Composite images of 3 datasets at different tissue depths. Dashed white lines indicate tissue surface. Cropped regions of (a,b) within dashed boxes (i–iii) indicate regions used for analysis in Fig. 5. Scale bar: 50 μm. This dataset can be accessed at [23].

Fig. 5
Fig. 5

Fourier analysis of datasets shown in Fig. 4. (a–f) Cropped and apodized regions within dashed boxes (i–iii) from Fig. 4 acquired with GLSM (left) and ALSM (right). (g–i) High-frequency enhancement factor, EFHF (z′) within dashed boxes (i–iii). Dashed lines in (g–i) are linear fits to the data, equations shown on each plot. This dataset can be accessed at [23].

Fig. 6
Fig. 6

Maximum intensity projection (x′z′ view) of mouse brain tissue injected with red fluorescent microspheres (diameter 600 nm) and illuminated by (a) GLSM and (b) ALSM. The top of the tissue is indicated by a dashed white line. This dataset can be accessed at [23].

Tables (3)

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Table 1 FWHM lateral measurements of fluorescent resolution markers in 0.1M PBS and 47% TDE/PBS buffers. Sample size indicates number of beads detected by spot finding algorithm.

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Table 2 Linear fit parameters of EFHF (z′) in non-cleared and cleared mouse brain tissue. Sample size was 11 for non-cleared tissue, 9 for cleared tissue.

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Table 3 Linear fits to the plot of FWHM vs depth from Figure 6. FWHM at surface (y-intercept) and FWHM/depth (gradient). Sample size (number of detected beads) was 86 for GLSM, 257 for ALSM.

Equations (3)

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S n ( z ) = k r , n 1 k r , n 0 2 π | I ˜ ( k r , k θ ; z ) | k r d k r d k θ k r , n 1 k r , n 0 2 π k r d k r d k θ
k r , n = n 10 2 NA λ
EF n ( z ) = S n ( z ) Airy S n ( z ) Gaussian

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