Mapping molecular landscapes inside cells

Biological Chemistry

Volumn 385, Issue 10, 2004, Pages 865-872

  Baumeister, Wolfgang ^a  

^a MAX PLANCK INSTITUTE OF BIOCHEMISTRY   (Germany)

Author keywords

Cell biology; Electron microscopy; Pattern recognition; Proteomics; Structural biology

Indexed keywords

PROTEOME;

ARTICLE; CELL ORGANELLE; CRYOELECTRON MICROSCOPY; CYTOLOGY; ELECTRON MICROSCOPY; HUMAN; INTRACELLULAR SPACE; MOLECULAR BIOLOGY; NONHUMAN; NUCLEAR MAGNETIC RESONANCE; PATTERN RECOGNITION; PRIORITY JOURNAL; PROTEOMICS; THREE DIMENSIONAL IMAGING; X RAY CRYSTALLOGRAPHY;

ANIMALS; CELLS; CRYOELECTRON MICROSCOPY; HUMANS; IMAGING, THREE-DIMENSIONAL; INTRACELLULAR SPACE; MOLECULAR BIOLOGY;

EID: 8344234966     PISSN: 14316730     EISSN: None     Source Type: Journal    
DOI: 10.1515/BC.2004.113     Document Type: Article

References (35)

1. Al-Amoudi, A., Norlen, L. P. O., and Dubochet, J. (2004). Cryoelectron microscopy of vitreous sections of native biological cells and tissues. J. Struct. Biol., in press.
2. Alberts, B. (1998). The cell as a collection of protein machines-preparing the next generation of molecular biologists. Cell 92, 291-294.
3. Baumeister, W. (2002). Electron tomography: towards visualizing the molecular organization of the cytoplasm. Curr. Opin. Struct. Biol. 12, 679-684.
4. Baumeister, W., Grimm, R., and Walz, J. (1999). Electron tomography of molecules and cells. Trends Cell Biol. 9, 81-85.
5. Böhm, J., Frangakis, A. S., Hegerl, R., Nickell, S., Typke, D., and Baumeister, W. (2000). Toward detecting and identifying macromolecules in a cellular context: Template matching applied to electron tomograms. Proc. Natl. Acad. Sci. USA 97, 14245-14250.
6. Böhm, J., Lambert, O., Frangakis, A. S., Letellier, L., Baumeister, W., and Rigaud, J. L. (2001). FhuA-mediated phage genome transfer into liposomes: a cryo-electron tomography study. Curr. Biol. 11, 1168-1175.
7. Crowther, R. A., Amos, L. A., Finch, J. T., De Rosier, D. J., and Klug, A. (1970). Three dimensional reconstructions of spherical viruses by fourier synthesis from electron micrographs. Nature 226, 421-425.
8. Dierksen, K., Typke, D., Hegerl, R., Koster, A. J., and Baumeister, W. (1992). Towards automatic electron tomography. Ultramicroscopy 40, 71-87.
9. Dierksen, K., Typke, D., Hegerl, R., Walz, J., Sackmann, E., and Baumeister, W. (1995). Three-dimensional structure of lipid vesicles embedded in vitreous ice and investigated by automated electron tomography. Biophys. J. 68, 1416-1422.
10. Dubochet, J., Adrian, M., Chang, J. J., Homo, J. C., Lepault, J., McDowall, A. W., and Schultz, P. (1988). Cryo-electron microscopy of vitrified specimens. Q. Rev. Biophys. 21, 129-228.
11. Frangakis, A. S., Böhm, J., Förster, F., Nickell, S., Nicastro, D., Typke, D., Hegerl, R., and Baumeister, W. (2002). Identification of macromolecular complexes in cryoelectron tomograms of phantom cells. Proc. Natl. Acad. Sci. USA 99, 14153-14158.
12. Frangakis, A. S., and Hegerl, R. (2001). Noise reduction in electron tomographic reconstructions using nonlinear anisotropic diffusion. J. Struct. Biol. 135, 239-250.
13. Grimm, R., Koster, A. J., Ziese, U., Typke, D., and Baumeister, W. (1996a). Zero-loss energy filtering under low-dose conditions using a post-column energy filter. J. Microsc. 183, 60-68.
14. Grimm, R., Typke, D., Bärmann, M., and Baumeister, W. (1996b). Determination of the inelastic mean free path in ice by examination of tilted vesicles and automated most probable loss imaging. Ultramicroscopy 63, 169-179.
15. Grimm, R., Bärmann, M., Häckl, W., Typke, D., Sackmann, E., and Baumeister, W. (1997). Energy filtered electron tomography of ice-embedded actin and vesicles. Biophys. J. 72, 482-489.
16. Grimm, R., Singh, H., Rachel, R., Typke, D., Zillig, W., and Baumeister, W. (1998a). Electron tomography of ice-embedded prokaryotic cells. Biophys. J. 74, 1031-1042.
17. Grimm, R., Typke, D., and Baumeister, W. (1998b). Improving image quality by zero-loss energy filtering-quantitative assessment by means of image cross-correlation. J. Microsc. 190, 339-349.
18. Grünewald, K., Desai, P., Winkler, D. C., Heymann, J. B., Belnap, D. M., Baumeister, W., and Steven, A. C. (2003a). Three-dimensional structure of herpes simplex virus from cryo-electron tomography. Science 302, 1396-1398.
19. Grünewald, K., Medalia, O., Gross, A., Steven, A. C., and Baumeister, W. (2003b). Prospects of electron cryotomography to visualize macromolecular complexes inside cellular compartments: implications of crowding. Biophys. Chem. 100, 577-591.
20. Hartwell, L. H., Hopfield, J. J., Leibler, S., and Murray, A. W. (1999). From molecular to modular cell biology. Nature 402, C47-C52.
21. Hegerl, R., and Hoppe, W. (1976). Influence of electron noise on three-dimensional image reconstruction. Z. Naturforsch. A 314, 1717-1721.
22. Koster, A. J., Grimm, R., Typke, D., Hegerl, R., Stoschek, A., Walz, J., and Baumeister, W. (1997). Perspectives of molecular and cellular electron tomography. J. Struct. Biol. 120, 276-308.
23. Mastronarde, D. N. (1997). Dual-axis tomography - an approach with alignment methods that preserve resolution. J. Struct. Biol. 120 343-352.
24. McEwen, B. F., Downing, K. H., and Glaeser, R. M. (1995). The relevance of dose-fractionation in tomography of radiation-sensitive specimens. Ultramicroscopy 60, 357-373.
25. Medalia, O., Weber, I., Frangakis, A. S., Nicastro, D., Gerisch, G., and Baumeister, W. (2002). Macromolecular architecture in eukaryotic cells visualized by cryoelectron tomography. Science 298 1209-1213.
26. Minton, A. P. (2000). Implications of macromolecular crowding for protein assembly. Curr. Opin. Struct. Biol. 10, 34-39.
27. Nicastro, D., Frangakis, A. S., Typke, D., and Baumeister, W. (2000). Cryo-electron tomography of Neurospora mitochondria. J. Struct. Biol. 129, 48-56.
28. Nickell, S., Förster, F., Linaroudis, A., Del Net, W., Beck, M., Hegerl, R., Baumeister, W., and Plitzko, J. (2004). TOM software toolbox: acquisition and analysis for electron tomography. J. Struct. Biol., in press.
29. Nickell, S., Hegerl, R., Baumeister, W., and Rachel, R. (2003). Pyrodictium cannulae enter the periplasmic space but do not enter the cytoplasm, as revealed by cryo-electron tomography. J. Struct. Biol. 141, 34-42.
30. Peters, J. M., Cejka, Z., Harris, J. R., Kleinschmidt, J. A., and Baumeister, W. (1993). Structural features of the 26 S proteasome complex. J. Mol. Biol. 234, 932-937.
31. Plitzko, J., Frangakis, A. S., Nickell, S., Förster, F., Gross, A., and Baumeister, W. (2002). In vivo veritas: electron cryotomography of cells. Trends Biotechnol. 20, S40-S44.
32. Radon, J. (1917). Über die Bestimmung von Funktionen durch ihre Integralwerte längs gewisser Mannigfaltigkeiten. Berichte über die Verhandlungen der Königlich Sächsischen Gesellschaft der Wissenschaften zu Leipzig. Math. Phys. Klasse 69, 262-277.
33. Sali, A., Glaeser, R., Earnest, T., and Baumeister, W. (2003). From words to literature in structural proteomics. Nature 422 216-225.
34. Saxton, W. O., Baumeister, W., and Hahn, M. (1984). Three-dimensional reconstruction of imperfect two-dimensional crystals. Ultramicroscopy 13, 57-70.
35. Typke, D., Dierksen, K., and Baumeister, W. (1991). Automatic Electron Tomography. In: 49th Annual Meeting of the Electron Microscopic Society of America, W. Bailey, ed. (San Francisco, USA: San Francisco Press), pp. 544-545.