Imaging today's infectious animalcules

Current Opinion in Microbiology

Volumn 9, Issue 3, 2006, Pages 297-306

  Frischknecht, Freddy ^a   Renaud, Olivier ^b   Shorte, Spencer L ^b  

^a UNIVERSITY OF HEIDELBERG   (Germany)

^b INSTITUT PASTEUR   (France)

Author keywords

[No Author keywords available]

Indexed keywords

CYSTEINE;

AUTOMATION; BACTERIUM; CONFOCAL MICROSCOPY; DNA PROBE; ELECTRON MICROSCOPE; EXPERIMENTATION; FLUORESCENCE; HOST CELL; IMAGING; INFECTION; INTERMETHOD COMPARISON; LABELING INDEX; METHODOLOGY; MICROBIOLOGY; MICROSCOPY; MOLECULAR DYNAMICS; NONHUMAN; PRECIPITATION; QUANTITATIVE ANALYSIS; REVIEW; TECHNOLOGY; ULTRASTRUCTURE; VIRUS;

ANIMALS; BACTERIA; IMAGE PROCESSING, COMPUTER-ASSISTED; MICROSCOPY; PROTOZOA; STAINING AND LABELING; VIRUSES;

TETRA;

EID: 33744792647     PISSN: 13695274     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mib.2006.04.007     Document Type: Review

References (66)

1. Hooke R: Micrographia or Some Physiological Descriptions of Minute Bodies Made by Magnifying Glasses (edn 1). Edited by Martyn J. and Allestry J. London; 1665.
2. Conchello J.A., and Lichtman J.W. Optical sectioning microscopy. Nat Methods 2 (2005) 920-931
3. North A.J. Seeing is believing? A beginners' guide to practical pitfalls in image acquisition. J Cell Biol 172 (2006) 9-18. This review article is a must for biologists just beginning to learn about optical fluorescence imaging.
4. •].
5. •] provide a stimulating overview on the state of the art, as well as the methods, background and principles underlying advanced fluorescent microscopy techniques.
6. Roux P., Munter S., Frischknecht F., Herbomel P., and Shorte S.L. Focusing light on infection in four dimensions. Cell Microbiol 6 (2004) 333-343
7. Hell S.W. Toward fluorescence nanoscopy. Nat Biotechnol 21 (2003) 1347-1355
8. •].
9. •] describe the highest resolution achieved in fluorescent imaging of living samples to date.
10. Garini Y., Vermolen B.J., and Young I.T. From micro to nano: recent advances in high-resolution microscopy. Curr Opin Biotechnol 16 (2005) 3-12. A pragmatic overview on mostly all of the advanced methods to date.
11. Gugel H., Bewersdorf J., Jakobs S., Engelhardt J., Storz R., and Hell S.W. Cooperative 4Pi excitation and detection yields sevenfold sharper optical sections in live-cell microscopy. Biophys J 87 (2004) 4146-4152
12. Hell S.W., Dyba M., and Jakobs S. Concepts for nanoscale resolution in fluorescence microscopy. Curr Opin Neurobiol 14 (2004) 599-609
13. Hofmann M., Eggeling C., Jakobs S., and Hell S.W. Breaking the diffraction barrier in fluorescence microscopy at low light intensities by using reversibly photoswitchable proteins. Proc Natl Acad Sci USA 102 (2005) 17565-17569
14. Wallrabe H., and Periasamy A. Imaging protein molecules using FRET and FLIM microscopy. Curr Opin Biotechnol 16 (2005) 19-27
15. van Munster E.B., and Gadella T.W. Fluorescence lifetime imaging microscopy (FLIM). Adv Biochem Eng Biotechnol 95 (2005) 143-175
16. Koster M., Frahm T., and Hauser H. Nucleocytoplasmic shuttling revealed by FRAP and FLIP technologies. Curr Opin Biotechnol 16 (2005) 28-34
17. Sprague B.L., and McNally J.G. FRAP analysis of binding: proper and fitting. Trends Cell Biol 15 (2005) 84-91
18. Bacia K., Kim S.A., and Schwille P. Fluorescence cross-correlation spectroscopy in living cells. Nat Methods 3 (2006) 83-89. Excellent review describing thoroughly the theory and up-to-date applications.
19. Berland K.M. Fluorescence correlation spectroscopy: a new tool for quantification of molecular interactions. Methods Mol Biol 261 (2004) 383-398
20. Bulseco D.A., and Wolf D.E. Fluorescence correlation spectroscopy: molecular complexing in solution and in living cells. Methods Cell Biol 72 (2003) 465-498
21. Elson E.L. Quick tour of fluorescence correlation spectroscopy from its inception. J Biomed Opt 9 (2004) 857-864
22. Cui Z.Q., Zhang Z.P., Zhang X.E., Wen J.K., Zhou Y.F., and Xie W.H. Visualizing the dynamic behavior of poliovirus plus-strand RNA in living host cells. Nucleic Acids Res 33 (2005) 3245-3252. The authors directly labelled poliovirus RNA with molecular beacons and observed RNA transport in real time. FRAP experiments showed that half of the RNA diffused freely, while the other half were almost immobile, probably as a result of association with microtubules.
23. Martin-Fernandez M., Longshaw S.V., Kirby I., Santis G., Tobin M.J., Clarke D.T., and Jones G.R. Adenovirus type-5 entry and disassembly followed in living cells by FRET, fluorescence anisotropy, and FLIM. Biophys J 87 (2004) 1316-1327. The time course of adenovirus capsid disassembly was revealed to comprise a fast (3 minute half-time) component and a slow (60 minute half-time) component. FLIM measurements performed on pH-sensitive probes showed that the first step occurs during endocytosis, whereas the second step takes place during viral escape from the endocytic compartment.
24. Larson D.R., Ma Y.M., Vogt V.M., and Webb W.W. Direct measurement of Gag-Gag interaction during retrovirus assembly with FRET and fluorescence correlation spectroscopy. J Cell Biol 162 (2003) 1233-1244
25. Hundt M.J., and Ruffolo C.G. Interaction of Pasteurella multocida with free-living amoebae. Appl Environ Microbiol 71 (2005) 5458-5464
26. Freitas-Junior L.H., Hernandez-Rivas R., Ralph S.A., Montiel-Condado D., Ruvalcaba-Salazar O.K., Rojas-Meza A.P., Mancio-Silva L., Leal-Silvestre R.J., Gontijo A.M., Shorte S., et al. Telomeric heterochromatin propagation and histone acetylation control mutually exclusive expression of antigenic variation genes in malaria parasites. Cell 121 (2005) 25-36
27. Duraisingh M.T., Voss T.S., Marty A.J., Duffy M.F., Good R.T., Thompson J.K., Freitas-Junior L.H., Scherf A., Crabb B.S., and Cowman A.F. Heterochromatin silencing and locus repositioning linked to regulation of virulence genes in Plasmodium falciparum. Cell 121 (2005) 13-24
28. Lehmann M.J., Sherer N.M., Marks C.B., Pypaert M., and Mothes W. Actin- and myosin-driven movement of viruses along filopodia precedes their entry into cells. J Cell Biol 170 (2005) 317-325. On the basis of well established observations that viruses often associate with filopodia, the authors use dynamic imaging to show that cells can capture virus particles with their filopodia resulting in the virus surfing along the filopodia towards the cell. Surfing is followed by virus entry at the base of filopodia and can be inhibited with actin and myosin specific inhibitors.
29. Mironov A.A., Beznoussenko G.V., and Luini A. Polishchuk RS: Visualizing intracellular events in vivo by combined video fluorescence and 3-D electron microscopy. Methods Enzymol 404 (2005) 43-57
30. Larson D.R., Johnson M.C., Webb W.W., and Vogt V.M. Visualization of retrovirus budding with correlated light and electron microscopy. Proc Natl Acad Sci USA 102 (2005) 15453-15458. Correlative quantification of virus budding events showed that during RSV, but not HIV budding, the formation of a polymerized Gag shell precedes the formation of plasma membrane buds.
31. Helmchen F., and Denk W. Deep tissue two-photon microscopy. Nat Methods 2 (2005) 932-940
32. Griffin B.A., Adams S.R., and Tsien R.Y. Specific covalent labeling of recombinant protein molecules inside live cells. Science 281 (1998) 269-272
33. Griffin B.A., Adams S.R., Jones J., and Tsien R.Y. Fluorescent labeling of recombinant proteins in living cells with FlAsH. Methods Enzymol 327 (2000) 565-578
34. Adams S.R., Campbell R.E., Gross L.A., Martin B.R., Walkup G.K., Yao Y., Llopis J., and Tsien R.Y. New biarsenical ligands and tetracysteine motifs for protein labeling in vitro and in vivo: synthesis and biological applications. J Am Chem Soc 124 (2002) 6063-6076
35. Martin B.R., Giepmans B.N., Adams S.R., and Tsien R.Y. Mammalian cell-based optimization of the biarsenical-binding tetracysteine motif for improved fluorescence and affinity. Nat Biotechnol 23 (2005) 1308-1314. A 20-fold increase in contrast because of higher quantum yields and improved dithiol resistance is reported for new 12-mer tetra-cysteine tags. This is an important advance, likely to make bi-arsenical tetra-cysteine tagging applicable to a broader spectrum of proteins, and reduce practical limitations arising from non-specific background.
36. Panchal R.G., Ruthel G., Kenny T.A., Kallstrom G.H., Lane D., Badie S.S., Li L., Bavari S., and Aman M.J. In vivo oligomerization and raft localization of Ebola virus protein VP40 during vesicular budding. Proc Natl Acad Sci USA 100 (2003) 15936-15941
37. Rudner L., Nydegger S., Coren L.V., Nagashima K., Thali M., and Ott D.E. Dynamic fluorescent imaging of human immunodeficiency virus type 1 Gag in live cells by biarsenical labeling. J Virol 79 (2005) 4055-4065
38. Gaietta G., Deerinck T.J., Adams S.R., Bouwer J., Tour O., Laird D.W., Sosinsky G.E., Tsien R.Y., and Ellisman M.H. Multicolor and electron microscopic imaging of connexin trafficking. Science 296 (2002) 503-507
39. Enninga J., Mounier J., Sansonetti P., and Tran Van Nhieu G. Secretion of type III effectors into host cells in real time. Nat Methods 2 (2005) 959-965. Using tetra-cysteine tagging of secreted bacterial proteins the injection of these effectors into the host cell could be quantitatively imaged in real time and correlated with the cellular effects they cause (i.e. membrane ruffling).
40. Schlumberger M.C., Muller A.J., Ehrbar K., Winnen B., Duss I., Stecher B., and Hardt W.D. Real-time imaging of type III secretion: Salmonella SipA injection into host cells. Proc Natl Acad Sci USA 102 (2005) 12548-12553. These authors expressed a GFP-tagged effector that functions as a chaperone for SipA in host cells, which enabled them to quantitatively image the arrival of the secreted bacterial effector upon bacterial attachment.
41. West N.P., Sansonetti P., Mounier J., Exley R.M., Parsot C., Guadagnini S., Prevost M.C., Prochnicka-Chalufour A., Delepierre M., Tanguy M., et al. Optimization of virulence functions through glucosylation of Shigella LPS. Science 307 (2005) 1313-1317
42. Grabenbauer M., Geerts W.J., Fernadez-Rodriguez J., Hoenger A., Koster A.J., and Nilsson T. Correlative microscopy and electron tomography of GFP through photooxidation. Nat Methods 2 (2005) 857-862. Using photo-bleaching of a Golgi resident GFP-tagged protein in the presence of DAB the authors managed to correlate light microscopic images with classic electron microscopy as well as tomography.
43. Lucic V., Forster F., and Baumeister W. Structural studies by electron tomography: from cells to molecules. Annu Rev Biochem 74 (2005) 833-865
44. Subramaniam S. Bridging the imaging gap: visualizing subcellular architecture with electron tomography. Curr Opin Microbiol 8 (2005) 316-322
45. McIntosh R., Nicastro D., and Mastronarde D. New views of cells in 3D: an introduction to electron tomography. Trends Cell Biol 15 (2005) 43-51
46. Giepmans B.N., Deerinck T.J., Smarr B.L., Jones Y.Z., and Ellisman M.H. Correlated light and electron microscopic imaging of multiple endogenous proteins using quantum dots. Nat Methods 2 (2005) 743-749. The different size of quantum dots was visualized in electron micrographs and directly correlated with multi-colour light microscope images.
47. ••].
48. Kurner J., Frangakis A.S., and Baumeister W. Cryo-electron tomography reveals the cytoskeletal structure of Spiroplasma melliferum. Science 307 (2005) 436-438
49. Komeili A., Li Z., Newman D.K., and Jensen G.J. Magnetosomes are cell membrane invaginations organized by the actin-like protein MamK. Science 311 (2006) 242-245. Fluorescence microscopy, cryo-electron tomography and gene knock-out technology are for the first time combined revealing how MamJ links magnetosomes to a new filamentous structure of MamK proteins. Both proteins are shown to be important for magnetosome alignment.
50. Forster F., Medalia O., Zauberman N., Baumeister W., and Fass D. Retrovirus envelope protein complex structure in situ studied by cryo-electron tomography. Proc Natl Acad Sci USA 102 (2005) 4729-4734
51. Cyrklaff M., Risco C., Fernandez J.J., Jimenez M.V., Esteban M., Baumeister W., and Carrascosa J.L. Cryo-electron tomography of vaccinia virus. Proc Natl Acad Sci USA 102 (2005) 2772-2777
52. Briggs J.A., Grunewald K., Glass B., Forster F., Krausslich H.G., and Fuller S.D. The mechanism of HIV-1 core assembly: insights from three-dimensional reconstructions of authentic virions. Structure 14 (2006) 15-20
53. Carey K.L., Westwood N.J., Mitchison T.J., and Ward G.E. A small-molecule approach to studying invasive mechanisms of Toxoplasma gondii. Proc Natl Acad Sci USA 101 (2004) 7433-7438
54. Mital J., Schwarz J., Taatjes D.J., and Ward G.E. Laser scanning cytometer-based assays for measuring host cell attachment and invasion by the human pathogen Toxoplasma gondii. Cytometry A 69 (2006) 13-19
55. Comley J. High content screening, emerging importance of novel reagents/probes and pathway analysis. Drug Discovery World (2005) 31-53
56. Comley J., and Fox S. Growing market for high content analysis tools. Drug Discovery World (2005) 25-34
57. Cheng L.W., Viala J.P., Stuurman N., Wiedemann U., Vale R.D., and Portnoy D.A. Use of RNA interference in Drosophila S2 cells to identify host pathways controlling compartmentalization of an intracellular pathogen. Proc Natl Acad Sci USA 102 (2005) 13646-13651
58. Agaisse H., Burrack L.S., Philips J.A., Rubin E.J., Perrimon N., and Higgins D.E. Genome-wide RNAi screen for host factors required for intracellular bacterial infection. Science 309 (2005) 1248-1251
59. Philips J.A., Rubin E.J., and Perrimon N. Drosophila RNAi screen reveals CD36 family member required for mycobacterial infection. Science 309 (2005) 1251-1253
60. Pelkmans L., Fava E., Grabner H., Hannus M., Habermann B., Krausz E., and Zerial M. Genome-wide analysis of human kinases in clathrin- and caveolae/raft-mediated endocytosis. Nature 436 (2005) 78-86. Surprisingly large numbers of kinases are found to modulate different entry pathways of two different viruses. Whereas some kinases are involved in only one pathway, others play either opposing or similar roles in both.
61. Pelkmans L. Viruses as probes for systems analysis of cellular signalling, cytoskeleton reorganization and endocytosis. Curr Opin Microbiol 8 (2005) 331-337
62. Goldberg I.G., Allan C., Burel J.M., Creager D., Falconi A., Hochheiser H., Johnston J., Mellen J., Sorger P.K., and Swedlow J.R. The Open Microscopy Environment (OME) data model and XML file: open tools for informatics and quantitative analysis in biological imaging. Genome Biol 6 (2005) R47. The Open Microscopy Environment is presented as an informatics framework based on an extensible and self-describing database intended for diverse image types, processing and analysis. This free, open-source tool is built by academic and industrial professionals uniquely aiming to close the gap between ever increasing imaging datasets and the need for ever more complex analysis tools.
63. Swedlow J.R. Quantitative fluorescence microscopy and image deconvolution. Methods Cell Biol 72 (2003) 349-367
64. Swedlow J.R., Goldberg I., Brauner E., and Sorger P.K. Informatics and quantitative analysis in biological imaging. Science 300 (2003) 100-102
65. Giepmans B.N., Adams S.R., Ellisman M.H., and Tsien R.Y. The fluorescent toolbox for assessing protein location and function. Science 312 (2006) 217-224. An excellent review describing the available tools that can be used for protein labelling in fixed and live cells.
66. Willig K.I., Rizzoli S.O., Westphal V., Jahn R., and Hell S.W. STED microscopy reveals that synaptotagmin remains clustered after synaptic vesicle exocytosis. Nature 440 (2006) 935-939. Using stimulated emission depletion (STED) microscopy, authors could resolve single synaptic vesicles in fixed cells. The resolution achieved using this technique allows separation of point objects that are 45 nm apart. This technique opens new perspective of structures that have a size of tens of nanometres.