6. J.G. White, E. Southgate, J.N. Thomson, S. Brenner, The structure of the nervous system of
the nematode Caenorhabditis elegans. Philos. Trans. R. Soc. Lond. B Biol. Sci. 314(1165), 1–
340 (1986)
7. S. Takemura, Connectome of the fly visual circuitry. Reprod. Syst. Sex. Disord. 64(1), 37–44
(2015)
8. J.R. Anderson, B.W. Jones, C.B. Watt, M.V. Shaw, J.-H. Yang, D. Demill, J.S. Lauritzen, Y.
Lin, K.D. Rapp, D. Mastronarde, P. Koshevoy, B. Grimm, T. Tasdizen, R. Whitaker, R.E.
Marc, Exploring the retinal connectome. Mol. Vis. 17, 355–379 (2011)
9. K.J. Hayworth, J.L. Morgan, R. Schalek, D.R. Berger, D.G.C. Hildebrand, J.W. Lichtman,
Imaging ATUM ultrathin section libraries with WaferMapper: a multi-scale approach to EM
reconstruction of neural circuits. Front. Neural Circuits 8, 68 (2014)
10. K.D. Micheva, S.J. Smith, Array tomography: a new tool for imaging the molecular
architecture and ultrastructure of neural circuits. Neuron 55(1), 25–36 (2007)
11. N. Kasthuri, K.J. Hayworth, D.R. Berger, R.L. Schalek, J.A. Conchello, S. Knowles-Barley,
D. Lee, A. Vázquez-Reina, V. Kaynig, T.R. Jones, M. Roberts, J.L. Morgan, J.C. Tapia, H.S.
Seung, W.G. Roncal, J.T. Vogelstein, R. Burns, D.L. Sussman, C.E. Priebe, H. Pfister, J.W.
Lichtman, Saturated reconstruction of a volume of neocortex. Cell 162(3), 648–661 (2015)
12. W. Denk, H. Horstmann, Serial block-face scanning electron microscopy to reconstruct
three-dimensional tissue nanostructure. PLoS Biol. 2(11), e329 (2004)
13. D. Wei, S. Jacobs, S. Modla, S. Zhang, C.L. Young, R. Cirino, J. Caplan, K. Czymmek,
High-resolution three-dimensional reconstruction of a whole yeast cell using focused-ion
beam scanning electron microscopy. Biotechniques 53(1), 41–48 (2012)
14. R. McIntosh, D. Nicastro, D. Mastronarde, New views of cells in 3D: an introduction to
electron tomography. Trends Cell Biol. 15(1), 43–51 (2005)
15. A. Hoenger, J.R. McIntosh, Probing the macromolecular organization of cells by electron
tomography. Curr. Opin. Cell Biol. 21(1), 89–96 (2009)
16. V. Lučič, A. Rigort, W. Baumeister, Cryo-electron tomography: the challenge of doing
structural biology in situ. J. Cell Biol. 202(3), 407–419 (2013)
17. G.E. Soto, S.J. Young, M.E. Martone, T.J. Deerinck, S. Lamont, B.O. Carragher, K. Hama,
M.H. Ellisman, Serial section electron tomography: a method for three-dimensional
reconstruction of large structures. Neuroimage 1(3), 230–243 (1994)
18. M.S. Ladinsky, D.N. Mastronarde, J.R. McIntosh, K.E. Howell, L.A. Staehelin, Golgi
structure in three dimensions: functional insights from the normal rat kidney cell. J. Cell Biol.
144(6), 1135–1149 (1999)
19. A.B. Noske, A.J. Costin, G.P. Morgan, B.J. Marsh, Expedited approaches to whole cell
electron tomography and organelle mark-up in situ in high-pressure frozen pancreatic islets.
J. Struct. Biol. 161(3), 298–313 (2008)
20. J.L. Höög, C. Schwartz, A.T. Noon, E.T. O’Toole, D.N. Mastronarde, J.R. McIntosh, C.
Antony, Organization of interphase microtubules in fission yeast analyzed by electron
tomography. Dev. Cell 12(3), 349–361 (2007)
21. S. Redemann, T. Müller-Reichert, Correlative light and electron microscopy for the analysis
of cell division. J. Microsc. 251(2), 109–112 (2013)
22. S. Phan, A. Lawrence, T. Molina, J. Lanman, M. Berlanga, M. Terada, A. Kulungowski,
J. Obayashi, M. Ellisman, TxBR montage reconstruction for large field electron tomography.
J. Struct. Biol. 180, 154–164 (2012)
23. D.N. Mastronarde, Dual-axis tomography: an approach with alignment methods that preserve
resolution. J. Struct. Biol. 120(3), 343–352 (1997)
24. K.L. McDonald, M. Morphew, P. Verkade, T. Müller-Reichert, Recent advances in
high-pressure freezing: equipment- and specimen-loading methods. Methods Mol. Biol.
369, 143–173 (2007)
25. K. McDonald, H. Schwarz, T. Müller-Reichert, R. Webb, C. Buser, M. Morphew, ‘Tips and
tricks’ for high-pressure freezing of model systems. Methods Cell Biol. 96, 671–693 (2010)
26. Q.S. Zheng, M.B. Braunfeld, J.W. Sedat, D.A. Agard, An improved strategy for automated
electron microscopic tomography. J. Struct. Biol. 147(2), 91–101 (2004)
4 Large-Scale Electron Tomography of Cells …
115
the nematode Caenorhabditis elegans. Philos. Trans. R. Soc. Lond. B Biol. Sci. 314(1165), 1–
340 (1986)
7. S. Takemura, Connectome of the fly visual circuitry. Reprod. Syst. Sex. Disord. 64(1), 37–44
(2015)
8. J.R. Anderson, B.W. Jones, C.B. Watt, M.V. Shaw, J.-H. Yang, D. Demill, J.S. Lauritzen, Y.
Lin, K.D. Rapp, D. Mastronarde, P. Koshevoy, B. Grimm, T. Tasdizen, R. Whitaker, R.E.
Marc, Exploring the retinal connectome. Mol. Vis. 17, 355–379 (2011)
9. K.J. Hayworth, J.L. Morgan, R. Schalek, D.R. Berger, D.G.C. Hildebrand, J.W. Lichtman,
Imaging ATUM ultrathin section libraries with WaferMapper: a multi-scale approach to EM
reconstruction of neural circuits. Front. Neural Circuits 8, 68 (2014)
10. K.D. Micheva, S.J. Smith, Array tomography: a new tool for imaging the molecular
architecture and ultrastructure of neural circuits. Neuron 55(1), 25–36 (2007)
11. N. Kasthuri, K.J. Hayworth, D.R. Berger, R.L. Schalek, J.A. Conchello, S. Knowles-Barley,
D. Lee, A. Vázquez-Reina, V. Kaynig, T.R. Jones, M. Roberts, J.L. Morgan, J.C. Tapia, H.S.
Seung, W.G. Roncal, J.T. Vogelstein, R. Burns, D.L. Sussman, C.E. Priebe, H. Pfister, J.W.
Lichtman, Saturated reconstruction of a volume of neocortex. Cell 162(3), 648–661 (2015)
12. W. Denk, H. Horstmann, Serial block-face scanning electron microscopy to reconstruct
three-dimensional tissue nanostructure. PLoS Biol. 2(11), e329 (2004)
13. D. Wei, S. Jacobs, S. Modla, S. Zhang, C.L. Young, R. Cirino, J. Caplan, K. Czymmek,
High-resolution three-dimensional reconstruction of a whole yeast cell using focused-ion
beam scanning electron microscopy. Biotechniques 53(1), 41–48 (2012)
14. R. McIntosh, D. Nicastro, D. Mastronarde, New views of cells in 3D: an introduction to
electron tomography. Trends Cell Biol. 15(1), 43–51 (2005)
15. A. Hoenger, J.R. McIntosh, Probing the macromolecular organization of cells by electron
tomography. Curr. Opin. Cell Biol. 21(1), 89–96 (2009)
16. V. Lučič, A. Rigort, W. Baumeister, Cryo-electron tomography: the challenge of doing
structural biology in situ. J. Cell Biol. 202(3), 407–419 (2013)
17. G.E. Soto, S.J. Young, M.E. Martone, T.J. Deerinck, S. Lamont, B.O. Carragher, K. Hama,
M.H. Ellisman, Serial section electron tomography: a method for three-dimensional
reconstruction of large structures. Neuroimage 1(3), 230–243 (1994)
18. M.S. Ladinsky, D.N. Mastronarde, J.R. McIntosh, K.E. Howell, L.A. Staehelin, Golgi
structure in three dimensions: functional insights from the normal rat kidney cell. J. Cell Biol.
144(6), 1135–1149 (1999)
19. A.B. Noske, A.J. Costin, G.P. Morgan, B.J. Marsh, Expedited approaches to whole cell
electron tomography and organelle mark-up in situ in high-pressure frozen pancreatic islets.
J. Struct. Biol. 161(3), 298–313 (2008)
20. J.L. Höög, C. Schwartz, A.T. Noon, E.T. O’Toole, D.N. Mastronarde, J.R. McIntosh, C.
Antony, Organization of interphase microtubules in fission yeast analyzed by electron
tomography. Dev. Cell 12(3), 349–361 (2007)
21. S. Redemann, T. Müller-Reichert, Correlative light and electron microscopy for the analysis
of cell division. J. Microsc. 251(2), 109–112 (2013)
22. S. Phan, A. Lawrence, T. Molina, J. Lanman, M. Berlanga, M. Terada, A. Kulungowski,
J. Obayashi, M. Ellisman, TxBR montage reconstruction for large field electron tomography.
J. Struct. Biol. 180, 154–164 (2012)
23. D.N. Mastronarde, Dual-axis tomography: an approach with alignment methods that preserve
resolution. J. Struct. Biol. 120(3), 343–352 (1997)
24. K.L. McDonald, M. Morphew, P. Verkade, T. Müller-Reichert, Recent advances in
high-pressure freezing: equipment- and specimen-loading methods. Methods Mol. Biol.
369, 143–173 (2007)
25. K. McDonald, H. Schwarz, T. Müller-Reichert, R. Webb, C. Buser, M. Morphew, ‘Tips and
tricks’ for high-pressure freezing of model systems. Methods Cell Biol. 96, 671–693 (2010)
26. Q.S. Zheng, M.B. Braunfeld, J.W. Sedat, D.A. Agard, An improved strategy for automated
electron microscopic tomography. J. Struct. Biol. 147(2), 91–101 (2004)
4 Large-Scale Electron Tomography of Cells …
115