Super-Resolution Mapping of Neuronal Circuitry With an Index-Optimized Clearing Agent

Cell Reports

Volumn 14, Issue 11, 2016, Pages 2718-2732

  Ke, Meng Tsen ^a   Nakai, Yasuhiro ^b,c   Fujimoto, Satoshi ^a   Takayama, Rie ^b,c   Yoshida, Shuhei ^a   Kitajima, Tomoya S ^a,d   Sato, Makoto ^b,c   Imai, Takeshi ^a,c,d  

^a RIKEN Center for Biosystems Dynamics Research   (Japan)

^b KANAZAWA UNIVERSITY   (Japan)

^c JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

^d KYOTO UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

IODIXANOL; IOHEXOL; IOPAMIDOL; IOVERSOL; N METHYL DEXTRO ASPARTIC ACID RECEPTOR; SAPONIN;

ANIMAL CELL; ANIMAL EXPERIMENT; ANIMAL TISSUE; ARTICLE; AUTOFLUORESCENCE IMAGING; CELL HETEROGENEITY; CONTROLLED STUDY; DENDRITE; DIPTERA; FLUORESCENCE IMAGING; HIGH RESOLUTION FLUORESCENCE IMAGING; LIGHT SCATTERING; MEDULLA OBLONGATA; MICROSCOPY; MOUSE; NERVE CELL; NERVE FIBER; NONHUMAN; PRIORITY JOURNAL; SUPER RESOLUTION MICROSCOPY; SYNAPSE; ANATOMY AND HISTOLOGY; ANIMAL; BRAIN; BRAIN MAPPING; CHEMISTRY; DEFICIENCY; FLUORESCENCE MICROSCOPY; GENETICS; METABOLISM; PHYSIOLOGY; REFRACTOMETRY;

ANIMALS; BRAIN; BRAIN MAPPING; IOHEXOL; MICE; MICROSCOPY, FLUORESCENCE; NEURONS; RECEPTORS, N-METHYL-D-ASPARTATE; REFRACTOMETRY; SAPONINS; SYNAPSES;

EID: 84962482699     PISSN: None     EISSN: 22111247     Source Type: Journal    
DOI: 10.1016/j.celrep.2016.02.057     Document Type: Article

References (42)

1. Abe T., Kiyonari H., Shioi G., Inoue K., Nakao K., Aizawa S., Fujimori T. Establishment of conditional reporter mouse lines at ROSA26 locus for live cell imaging. Genesis 2011, 49:579-590.
2. Baho E., Di Cristo G. Neural activity and neurotransmission regulate the maturation of the innervation field of cortical GABAergic interneurons in an age-dependent manner. J. Neurosci. 2012, 32:911-918.
3. Borst A., Helmstaedter M. Common circuit design in fly and mammalian motion vision. Nat. Neurosci. 2015, 18:1067-1076.
4. Chen J.L., Villa K.L., Cha J.W., So P.T.C., Kubota Y., Nedivi E. Clustered dynamics of inhibitory synapses and dendritic spines in the adult neocortex. Neuron 2012, 74:361-373.
5. Chen B.C., Legant W.R., Wang K., Shao L., Milkie D.E., Davidson M.W., Janetopoulos C., Wu X.S., Hammer J.A., Liu Z., et al. Lattice light-sheet microscopy: imaging molecules to embryos at high spatiotemporal resolution. Science 2014, 346:1257998.
6. Chen F., Tillberg P.W., Boyden E.S. Optical imaging. Expansion microscopy. Science 2015, 347:543-548.
7. Chung K., Wallace J., Kim S.Y., Kalyanasundaram S., Andalman A.S., Davidson T.J., Mirzabekov J.J., Zalocusky K.A., Mattis J., Denisin A.K., et al. Structural and molecular interrogation of intact biological systems. Nature 2013, 497:332-337.
8. Ding J.B., Takasaki K.T., Sabatini B.L. Supraresolution imaging in brain slices using stimulated-emission depletion two-photon laser scanning microscopy. Neuron 2009, 63:429-437.
9. Feng G., Mellor R.H., Bernstein M., Keller-Peck C., Nguyen Q.T., Wallace M., Nerbonne J.M., Lichtman J.W., Sanes J.R. Imaging neuronal subsets in transgenic mice expressing multiple spectral variants of GFP. Neuron 2000, 28:41-51.
10. Hama H., Kurokawa H., Kawano H., Ando R., Shimogori T., Noda H., Fukami K., Sakaue-Sawano A., Miyawaki A. Scale: a chemical approach for fluorescence imaging and reconstruction of transparent mouse brain. Nat. Neurosci. 2011, 14:1481-1488.
11. Hama H., Hioki H., Namiki K., Hoshida T., Kurokawa H., Ishidate F., Kaneko T., Akagi T., Saito T., Saido T., Miyawaki A. ScaleS: an optical clearing palette for biological imaging. Nat. Neurosci. 2015, 18:1518-1529.
12. Hasegawa E., Kitada Y., Kaido M., Takayama R., Awasaki T., Tabata T., Sato M. Concentric zones, cell migration and neuronal circuits in the Drosophila visual center. Development 2011, 138:983-993.
13. Hayashi S., Okada Y. Ultrafast superresolution fluorescence imaging with spinning disk confocal microscope optics. Mol. Biol. Cell 2015, 26:1743-1751.
14. Hell S., Reiner G., Cremer C., Stelzer E.H.K. Aberrations in confocal fluorescence microscopy induced by mismatches in refractive index. J. Microsc. 1993, 169:391-405.
15. Huff J. The Airyscan detector from ZEISS: confocal imaging with improved signal-to-noise ratio and super-resolution. Nat. Methods 2015, 12:i-ii.
16. Kasthuri N., Hayworth K.J., Berger D.R., Schalek R.L., Conchello J.A., Knowles-Barley S., Lee D., Vázquez-Reina A., Kaynig V., Jones T.R., et al. Saturated reconstruction of a volume of neocortex. Cell 2015, 162:648-661.
17. Ke M.-T., Imai T. Optical clearing of fixed brain samples using SeeDB. Curr. Protoc. Neurosci. 2014, 66:2.22.1-2.22.19.
18. Ke M.T., Fujimoto S., Imai T. SeeDB: a simple and morphology-preserving optical clearing agent for neuronal circuit reconstruction. Nat. Neurosci. 2013, 16:1154-1161.
19. Kitajima T.S., Ohsugi M., Ellenberg J. Complete kinetochore tracking reveals error-prone homologous chromosome biorientation in mammalian oocytes. Cell 2011, 146:568-581.
20. Kleinfeld D., Bharioke A., Blinder P., Bock D.D., Briggman K.L., Chklovskii D.B., Denk W., Helmstaedter M., Kaufhold J.P., Lee W.C.A., et al. Large-scale automated histology in the pursuit of connectomes. J. Neurosci. 2011, 31:16125-16138.
21. Lichtman J.W., Denk W. The big and the small: challenges of imaging the brain's circuits. Science 2011, 334:618-623.
22. Livet J., Weissman T.A., Kang H., Draft R.W., Lu J., Bennis R.A., Sanes J.R., Lichtman J.W. Transgenic strategies for combinatorial expression of fluorescent proteins in the nervous system. Nature 2007, 450:56-62.
23. Maisak M.S., Haag J., Ammer G., Serbe E., Meier M., Leonhardt A., Schilling T., Bahl A., Rubin G.M., Nern A., et al. A directional tuning map of Drosophila elementary motion detectors. Nature 2013, 500:212-216.
24. Maurice D.M. Clearing media for the eye. Br. J. Ophthalmol. 1987, 71:470-472.
25. Micheva K.D., Smith S.J. Array tomography: a new tool for imaging the molecular architecture and ultrastructure of neural circuits. Neuron 2007, 55:25-36.
26. Moneron G., Hell S.W. Two-photon excitation STED microscopy. Opt. Express 2009, 17:14567-14573.
27. Peng H., Hawrylycz M., Roskams J., Hill S., Spruston N., Meijering E., Ascoli G.A. BigNeuron: large-scale 3D neuron reconstruction from optical microscopy images. Neuron 2015, 87:252-256.
28. Richardson D.S., Lichtman J.W. Clarifying tissue clearing. Cell 2015, 162:246-257.
29. Schermelleh L., Heintzmann R., Leonhardt H. A guide to super-resolution fluorescence microscopy. J. Cell Biol. 2010, 190:165-175.
30. Shinomiya K., Karuppudurai T., Lin T.Y., Lu Z., Lee C.H., Meinertzhagen I.A. Candidate neural substrates for off-edge motion detection in Drosophila. Curr. Biol. 2014, 24:1062-1070.
31. Sigal Y.M., Speer C.M., Babcock H.P., Zhuang X. Mapping synaptic input fields of neurons with super-resolution imaging. Cell 2015, 163:493-505.
32. Sigrist S.J., Sabatini B.L. Optical super-resolution microscopy in neurobiology. Curr. Opin. Neurobiol. 2012, 22:86-93.
33. Staudt T., Lang M.C., Medda R., Engelhardt J., Hell S.W. 2,2'-thiodiethanol: a new water soluble mounting medium for high resolution optical microscopy. Microsc. Res. Tech. 2007, 70:1-9.
34. Susaki E.A., Tainaka K., Perrin D., Kishino F., Tawara T., Watanabe T.M., Yokoyama C., Onoe H., Eguchi M., Yamaguchi S., et al. Whole-brain imaging with single-cell resolution using chemical cocktails and computational analysis. Cell 2014, 157:726-739.
35. Takemura S.Y., Bharioke A., Lu Z., Nern A., Vitaladevuni S., Rivlin P.K., Katz W.T., Olbris D.J., Plaza S.M., Winston P., et al. A visual motion detection circuit suggested by Drosophila connectomics. Nature 2013, 500:175-181.
36. Tomer R., Ye L., Hsueh B., Deisseroth K. Advanced CLARITY for rapid and high-resolution imaging of intact tissues. Nat. Protoc. 2014, 9:1682-1697.
37. Tønnesen J., Nägerl U.V. Superresolution imaging for neuroscience. Exp. Neurol. 2013, 242:33-40.
38. Tønnesen J., Katona G., Rózsa B., Nägerl U.V. Spine neck plasticity regulates compartmentalization of synapses. Nat. Neurosci. 2014, 17:678-685.
39. Tsien J.Z., Chen D.F., Gerber D., Tom C., Mercer E.H., Anderson D.J., Mayford M., Kandel E.R., Tonegawa S. Subregion- and cell type-restricted gene knockout in mouse brain. Cell 1996, 87:1317-1326.
40. Ultanir S.K., Kim J.E., Hall B.J., Deerinck T., Ellisman M., Ghosh A. Regulation of spine morphology and spine density by NMDA receptor signaling in vivo. Proc. Natl. Acad. Sci. USA 2007, 104:19553-19558.
41. Urban N.T., Willig K.I., Hell S.W., Nägerl U.V. STED nanoscopy of actin dynamics in synapses deep inside living brain slices. Biophys. J. 2011, 101:1277-1284.
42. Yang B., Treweek J.B., Kulkarni R.P., Deverman B.E., Chen C.K., Lubeck E., Shah S., Cai L., Gradinaru V. Single-cell phenotyping within transparent intact tissue through whole-body clearing. Cell 2014, 158:945-958.