Use of cryo‐negative staining in tomographic reconstruction of biological objects: application to T4 bacteriophage

Recent advances in electron microscopy and image analysis techniques have resulted in the development of tomography, which makes possible the study of structures neither accessible to X—ray crystallography nor nuclear magnetic resonance. However, the use of tomography to study biological structures, ranging from 100 to 500 nm, requires developments in sample preparation and image analysis. Indeed, cryo‐electron tomography present two major drawbacks: the low contrast of recorded images and the sample radiation damage. In the present work we have tested, on T4 bacteriophage samples, the use of a new preparation technique, cryo‐negative staining (Adrian et al., 1998), which reduces the radiation damage while preserving a high signal‐to‐noise ratio (De Carlo et al., 2002). Our results demonstrate that the combination of cryo‐negative staining in tomography with standard cryo‐microscopy and single particle analysis results in a methodological approach that could be useful in the study of biological structures ranging in the T4 bacteriophage size.

[1]  J R Kremer,et al.  Computer visualization of three-dimensional image data using IMOD. , 1996, Journal of structural biology.

[2]  E. Nogales,et al.  Structure of the alpha beta tubulin dimer by electron crystallography. , 1998, Nature.

[3]  J. Frank,et al.  Electron tomographic analysis of frozen-hydrated tissue sections. , 2002, Journal of structural biology.

[4]  Marin van Heel,et al.  Multivariate statistical classification of noisy images (randomly oriented biological macromolecules) , 1984 .

[5]  Joachim Frank,et al.  Electron Tomography , 1992, Springer US.

[6]  Niels Volkmann,et al.  A novel three-dimensional variant of the watershed transform for segmentation of electron density maps. , 2002, Journal of structural biology.

[7]  R. Hegerl,et al.  Cryoelectron microscopy and cryoelectron tomography of the nuclear pre-mRNA processing machine. , 2002, Journal of structural biology.

[8]  Achilleas S Frangakis,et al.  FhuA-mediated phage genome transfer into liposomes A cryo-electron tomography study , 2001, Current Biology.

[9]  W. Baumeister,et al.  Perspectives of molecular and cellular electron tomography. , 1997, Journal of structural biology.

[10]  E. Nogales,et al.  Refined structure of alpha beta-tubulin at 3.5 A resolution. , 2001, Journal of molecular biology.

[11]  J. Frank Three-Dimensional Electron Microscopy of Macromolecular Assemblies: Visualization of Biological Molecules in Their Native State , 1996 .

[12]  K. Howell,et al.  Structure of the Golgi and distribution of reporter molecules at 20°C reveals the complexity of the exit compartments , 2002 .

[13]  A Pascual-Montano,et al.  Quantitative self-organizing maps for clustering electron tomograms. , 2002, Journal of structural biology.

[14]  J. Dubochet,et al.  Cryo-negative staining. , 1998, Micron.

[15]  Pawel A Penczek,et al.  Three-dimensional spectral signal-to-noise ratio for a class of reconstruction algorithms. , 2002, Journal of structural biology.

[16]  José María Carazo,et al.  A variant to the “random approximation” of the reference-free alignment algorithm , 1996 .

[17]  F. Zemlin,et al.  Structure of keyhole limpet hemocyanin type 1 (KLH1) at 15 A resolution by electron cryomicroscopy and angular reconstitution. , 1997, Journal of molecular biology.

[18]  J Frank,et al.  The internal compartmentation of rat‐liver mitochondria: Tomographic study using the high‐voltage transmission electron microscope , 1994, Microscopy research and technique.

[19]  J. Dubochet,et al.  Multiple oligomeric states of the Helicobacter pylori vacuolating toxin demonstrated by cryo-electron microscopy. , 2002, Journal of molecular biology.

[20]  D. Studer,et al.  High pressure freezing comes of age. , 1989, Scanning microscopy. Supplement.

[21]  W Baumeister,et al.  Electron tomography of molecules and cells. , 1999, Trends in cell biology.

[22]  M. Heel,et al.  Exact filters for general geometry three dimensional reconstruction , 1986 .

[23]  R. Glaeser,et al.  Radiation damage relative to transmission electron microscopy of biological specimens at low temperature: a review , 1978, Journal of microscopy.

[24]  J. Dubochet,et al.  Cryo-electron microscopy of vitrified specimens , 1988, Quarterly Reviews of Biophysics.

[25]  T. Matsuda,et al.  Development of a 1 MV field-emission transmission electron microscope. , 2000, Journal of electron microscopy.

[26]  J. Frank,et al.  The ribosome at improved resolution: new techniques for merging and orientation refinement in 3D cryo-electron microscopy of biological particles. , 1994, Ultramicroscopy.

[27]  M Marko,et al.  The Emergence of Electron Tomography as an Important Tool for Investigating Cellular Ultrastructure , 2001, The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society.

[28]  J M Carazo,et al.  Pattern recognition and classification of images of biological macromolecules using artificial neural networks. , 1994, Biophysical journal.

[29]  A Leith,et al.  SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields. , 1996, Journal of structural biology.

[30]  Reiner Hegerl,et al.  Towards automatic electron tomography , 1992 .

[31]  J. Frank,et al.  Use of multivariate statistics in analysing the images of biological macromolecules. , 1981, Ultramicroscopy.

[32]  C El-Bez,et al.  Cryo-negative staining reduces electron-beam sensitivity of vitrified biological particles. , 2002, Journal of structural biology.

[33]  Achilleas S Frangakis,et al.  Segmentation of two- and three-dimensional data from electron microscopy using eigenvector analysis. , 2002, Journal of structural biology.

[34]  Marco,et al.  Xmipp: An Image Processing Package for Electron Microscopy , 1996, Journal of structural biology.

[35]  K. Howell,et al.  Structure of the Golgi and distribution of reporter molecules at 20 degrees C reveals the complexity of the exit compartments. , 2002, Molecular biology of the cell.

[36]  J. McIntosh,et al.  High-voltage electron tomography of spindle pole bodies and early mitotic spindles in the yeast Saccharomyces cerevisiae. , 1999, Molecular biology of the cell.