31. E. Villa, M. Schaffer, J.M. Plitzko, W. Baumeister, Opening windows into the cell:
focused-ion-beam milling for cryo-electron tomography. Curr. Opin. Struct. Biol. 23(5),
771–777 (2013)
32. J. Mahamid et al., Visualizing the molecular sociology at the HeLa cell nuclear periphery.
Science 351(6276), 969–972 (2016)
33. L.G. Dowell, A.P. Rinfret, Low-temperature forms of ice as studied by X-Ray diffraction.
Nature 188(4757), 1144–1148 (1960)
34. W.V. Nicholson, H. White, J. Trinick, An approach to automated acquisition of cryoEM
images from lacey carbon grids. J. Struct. Biol. 172(3), 395–399 (2010)
35. M. Beeby, D.A. Ribardo, C.A. Brennan, E.G. Ruby, G.J. Jensen, D.R. Hendrixson, Diverse
high-torque bacterial flagellar motors assemble wider stator rings using a conserved protein
scaffold. Proc. Natl. Acad. Sci. 113(13), E1917–E1926 (2016)
36. C.V. Iancu, E.R. Wright, J.B. Heymann, G.J. Jensen, A comparison of liquid nitrogen and
liquid helium as cryogens for electron cryotomography. J. Struct. Biol. 153(3), 231–240
(2006)
37. G. McMullan, S. Chen, R. Henderson, A.R. Faruqi, Detective quantum efficiency of electron
area detectors in electron microscopy. Ultramicroscopy 109(9), 1126–1143 (2009)
38. X. Li et al., Electron counting and beam-induced motion correction enable near atomic
resolution single particle cryoEM. Nat. Methods 10(6), 584–590 (2013)
39. M. Kuijper et al., FEI’s direct electron detector developments: Embarking on a revolution in
cryo-TEM. J. Struct. Biol. 192(2), 179–187 (2015)
40. Danev, R., Nagayama, K.: Chapter Fourteen—Phase Plates for Transmission Electron
Microscopy, in Cryo-EM Part A Sample Preparation and Data Collection, vol.
481 (Academic Press, 2010), pp. 343–369
41. R. Danev, S. Kanamaru, M. Marko, K. Nagayama, Zernike phase contrast cryo-electron
tomography. J. Struct. Biol. 171(2), 174–181 (2010)
42. Y. Fukuda, U. Laugks, V. Lučić, W. Baumeister, R. Danev, Electron cryotomography of
vitrified cells with a Volta phase plate. J. Struct. Biol. (2015)
43. R.C. Guerrero-Ferreira, E.R. Wright, Cryo-electron tomography of bacterial viruses.
Virology 435(1), 179–186 (2013)
44. W. Dai et al., Visualizing virus assembly intermediates inside marine cyanobacteria. Nature
502(7473), 707–710 (2013)
45. D.N. Mastronarde, Automated electron microscope tomography using robust prediction of
specimen movements. J. Struct. Biol. 152(1), 36–51 (2005)
46. 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)
47. C. Suloway et al., Automated molecular microscopy: the new Leginon system. J. Struct.
Biol. 151(1), 41–60 (2005)
48. G.C. Lander et al., Appion: an integrated, database-driven pipeline to facilitate EM image
processing. J. Struct. Biol. 166(1), 95–102 (2009)
49. C. Suloway et al., Fully automated, sequential tilt-series acquisition with Leginon. J. Struct.
Biol. 167(1), 11–18 (2009)
50. R. Henderson, The potential and limitations of neutrons, electrons and X-rays for atomic
resolution microscopy of unstained biological molecules. Q. Rev. Biophys. 28(2), 171–193
(1995)
51. T.A.M. Bharat, C.J. Russo, J. Löwe, L.A. Passmore, S.H.W. Scheres, Advances in
single-particle electron cryomicroscopy structure determination applied to sub-tomogram
averaging. Structure 23(9), 1743–1753 (2015)
52. F.K.M. Schur, W.J.H. Hagen, A. de Marco, J.A.G. Briggs, Determination of protein
structure at 8.5 Å resolution using cryo-electron tomography and sub-tomogram averaging.
J. Struct. Biol. 184(3), 394–400 (2013)
53. A. Bartesaghi, F. Lecumberry, G. Sapiro, S. Subramaniam, Protein secondary structure
determination by constrained single-particle cryo-electron tomography. Structure 20(12),
2003–2013 (2012)
90
J. L. Ferreira et al.
focused-ion-beam milling for cryo-electron tomography. Curr. Opin. Struct. Biol. 23(5),
771–777 (2013)
32. J. Mahamid et al., Visualizing the molecular sociology at the HeLa cell nuclear periphery.
Science 351(6276), 969–972 (2016)
33. L.G. Dowell, A.P. Rinfret, Low-temperature forms of ice as studied by X-Ray diffraction.
Nature 188(4757), 1144–1148 (1960)
34. W.V. Nicholson, H. White, J. Trinick, An approach to automated acquisition of cryoEM
images from lacey carbon grids. J. Struct. Biol. 172(3), 395–399 (2010)
35. M. Beeby, D.A. Ribardo, C.A. Brennan, E.G. Ruby, G.J. Jensen, D.R. Hendrixson, Diverse
high-torque bacterial flagellar motors assemble wider stator rings using a conserved protein
scaffold. Proc. Natl. Acad. Sci. 113(13), E1917–E1926 (2016)
36. C.V. Iancu, E.R. Wright, J.B. Heymann, G.J. Jensen, A comparison of liquid nitrogen and
liquid helium as cryogens for electron cryotomography. J. Struct. Biol. 153(3), 231–240
(2006)
37. G. McMullan, S. Chen, R. Henderson, A.R. Faruqi, Detective quantum efficiency of electron
area detectors in electron microscopy. Ultramicroscopy 109(9), 1126–1143 (2009)
38. X. Li et al., Electron counting and beam-induced motion correction enable near atomic
resolution single particle cryoEM. Nat. Methods 10(6), 584–590 (2013)
39. M. Kuijper et al., FEI’s direct electron detector developments: Embarking on a revolution in
cryo-TEM. J. Struct. Biol. 192(2), 179–187 (2015)
40. Danev, R., Nagayama, K.: Chapter Fourteen—Phase Plates for Transmission Electron
Microscopy, in Cryo-EM Part A Sample Preparation and Data Collection, vol.
481 (Academic Press, 2010), pp. 343–369
41. R. Danev, S. Kanamaru, M. Marko, K. Nagayama, Zernike phase contrast cryo-electron
tomography. J. Struct. Biol. 171(2), 174–181 (2010)
42. Y. Fukuda, U. Laugks, V. Lučić, W. Baumeister, R. Danev, Electron cryotomography of
vitrified cells with a Volta phase plate. J. Struct. Biol. (2015)
43. R.C. Guerrero-Ferreira, E.R. Wright, Cryo-electron tomography of bacterial viruses.
Virology 435(1), 179–186 (2013)
44. W. Dai et al., Visualizing virus assembly intermediates inside marine cyanobacteria. Nature
502(7473), 707–710 (2013)
45. D.N. Mastronarde, Automated electron microscope tomography using robust prediction of
specimen movements. J. Struct. Biol. 152(1), 36–51 (2005)
46. 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)
47. C. Suloway et al., Automated molecular microscopy: the new Leginon system. J. Struct.
Biol. 151(1), 41–60 (2005)
48. G.C. Lander et al., Appion: an integrated, database-driven pipeline to facilitate EM image
processing. J. Struct. Biol. 166(1), 95–102 (2009)
49. C. Suloway et al., Fully automated, sequential tilt-series acquisition with Leginon. J. Struct.
Biol. 167(1), 11–18 (2009)
50. R. Henderson, The potential and limitations of neutrons, electrons and X-rays for atomic
resolution microscopy of unstained biological molecules. Q. Rev. Biophys. 28(2), 171–193
(1995)
51. T.A.M. Bharat, C.J. Russo, J. Löwe, L.A. Passmore, S.H.W. Scheres, Advances in
single-particle electron cryomicroscopy structure determination applied to sub-tomogram
averaging. Structure 23(9), 1743–1753 (2015)
52. F.K.M. Schur, W.J.H. Hagen, A. de Marco, J.A.G. Briggs, Determination of protein
structure at 8.5 Å resolution using cryo-electron tomography and sub-tomogram averaging.
J. Struct. Biol. 184(3), 394–400 (2013)
53. A. Bartesaghi, F. Lecumberry, G. Sapiro, S. Subramaniam, Protein secondary structure
determination by constrained single-particle cryo-electron tomography. Structure 20(12),
2003–2013 (2012)
90
J. L. Ferreira et al.