A method to separate nuclear, cytosolic, and membrane-associated signaling molecules in cultured cells

Science Signaling

Volumn 4, Issue 203, 2011, Pages

  Liu, Xiaoyong ^a   Fagotto, François ^a  

^a MCGILL UNIVERSITY   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

ACTIN; ALPHA ACTININ; CELL PROTEIN; DIGITONIN; GAMMA TUBULIN; GLYCERALDEHYDE 3 PHOSPHATE DEHYDROGENASE; MEMBRANE PROTEIN; MITOGEN ACTIVATED PROTEIN KINASE 1; MITOGEN ACTIVATED PROTEIN KINASE 3; PROTEIN KINASE; PROTEIN KINASE C; RANBP3 PROTEIN; UNCLASSIFIED DRUG; VIMENTIN;

CELL FRACTIONATION; CELL MEMBRANE; CELL PERMEABILIZATION; CELL SEMIPERMEABILIZATION; CELL STRAIN CACO 2; CELL STRAIN HEK293; CELL STRAIN MCF 7; CYTOSKELETON; CYTOSOL; ENZYME PHOSPHORYLATION; FIBROBLAST; FLOTATION; HELA CELL; HUMAN; NONHUMAN; NUCLEOSOL; NUCLEOSOME; PRIORITY JOURNAL; REVIEW; SIGNAL TRANSDUCTION; ULTRACENTRIFUGATION; WESTERN BLOTTING; ANIMAL; ARTICLE; BIOCHEMISTRY; BIOLOGICAL MODEL; CELL CULTURE; CELL LINE; CELL NUCLEUS; DENSITY GRADIENT CENTRIFUGATION; METABOLISM; METHODOLOGY; MOUSE;

ANIMALS; BIOCHEMISTRY; CACO-2 CELLS; CELL LINE; CELL NUCLEUS; CELLS, CULTURED; CENTRIFUGATION, DENSITY GRADIENT; CYTOSOL; HEK293 CELLS; HELA CELLS; HUMANS; MICE; MODELS, BIOLOGICAL; SIGNAL TRANSDUCTION;

EID: 83655203029     PISSN: 19450877     EISSN: 19379145     Source Type: Journal    
DOI: 10.1126/scisignal.2002373     Document Type: Review

References (43)

1. J. D. Castle, Purification of organelles from mammalian cells. Curr. Protoc. Immunol. Chapter 8 (1B), 8, 1B (2003).
2. F. Aniento, J. Gruenberg, Subcellular fractionation of tissue culture cells. Curr. Protoc. Immunol. Chapter 8 (1C), 8, 1C (2003).
3. D. M. Wong, K. Adeli, Microsomal proteomics. Methods Mol. Biol. 519, 273-289 (2009).
4. C. E. Au, A. W. Bell, A. Gilchrist, J. Hiding, T. Nilsson, J. J. Bergeron, Organellar proteomics to create the cell map. Curr. Opin. Cell Biol. 19, 376-385 (2007).
5. U. Michelsen, J. von Hagen, Isolation of subcellular organelles and structures. Methods Enzymol. 463, 305-328 (2009).
6. T. Stasyk, L. A. Huber, Zooming in: Fractionation strategies in proteomics. Proteomics 4, 3704-3716 (2004).
7. L. A. Huber, K. Pfaller, I. Vietor, Organelle proteomics: Implications for subcellular fractionation in proteomics. Circ. Res. 92, 962-968 (2003).
8. P. G. Sadowski, A. J. Groen, P. Dupree, K. S. Lilley, Sub-cellular localization of membrane proteins. Proteomics 8, 3991-4011 (2008).
9. C. Mosimann, G. Hausmann, K. Basler, Beta-catenin hits chromatin: Regulation of Wnt target gene activation. Nat. Rev. Mol. Cell Biol. 10, 276-286 (2009).
10. B. R. Henderson, F. Fagotto, The ins and outs of APC and beta-catenin nuclear transport. EMBO Rep. 3, 834-839 (2002).
11. D. S. Aaronson, C. M. Horvath, A road map for those who don't know JAK-STAT. Science 296, 1653-1655 (2002).
12. P. ten Dijke, C. S. Hill, New insights into TGF-beta-Smad signalling. Trends Biochem. Sci. 29, 265-273 (2004).
13. Y. Mebratu, Y. Tesfaigzi, How ERK1/2 activation controls cell proliferation and cell death: Is subcellular localization the answer? Cell Cycle 8, 1168-1175 (2009).
14. B. Cox, A. Emili, Tissue subcellular fractionation and protein extraction for use in mass-spectrometry-based proteomics. Nat. Protoc. 1, 1872-1878 (2006).
15. A. Essafi, A. R. Gomes, K. M. Pomeranz, A. K. Zwolinska, R. Varshochi, U. B. McGovern, E. W. Lam, Studying the subcellular localization and DNA-binding activity of FoxO transcription factors, downstream effectors of PI3K/Akt. Methods Mol. Biol. 462, 201-211 (2009).
16. P. Holden, W. A. Horton, Crude subcellular fractionation of cultured mammalian cell lines. BMC Res. Notes 2, 243 (2009).
17. L. G. Tilney, K. R. Porter, Studies on the microtubules in heliozoa. II. The effect of low temperature on these structures in the formation and maintenance of the axopodia. J. Cell Biol. 34, 327-343 (1967).
18. P. de Lanerolle, A. B. Cole, Cytoskeletal proteins and gene regulation: Form, function, and signal transduction in the nucleus. Sci. STKE 2002, pe30 (2002).
19. M. Bustin, N. K. Neihart, Antibodies against chromosomal HMG proteins stain the cytoplasm of mammalian cells. Cell 16, 181-189 (1979).
20. R. E. Manrow, A. R. Sburlati, J. A. Hanover, S. L. Berger, Nuclear targeting of prothymosin alpha. J. Biol. Chem. 266, 3916-3924 (1991).
21. P. L. Paine, C. F. Austerberry, L. J. Desjarlais, S. B. Horowitz, Protein loss during nuclear isolation. J. Cell Biol. 97, 1240-1242 (1983).
22. S. A. Adam, R. S. Marr, L. Gerace, Nuclear protein import in permeabilized mammalian cells requires soluble cytoplasmic factors. J. Cell Biol. 111, 807-816 (1990).
23. I. Schulz, Permeabilizing cells: Some methods and applications for the study of intracellular processes. Methods Enzymol. 192, 280-300 (1990).
24. A. L. Foucher, B. Papadopoulou, M. Ouellette, Prefractionation by digitonin extraction increases representation of the cytosolic and intracellular proteome of Leishmania infantum. J. Proteome Res. 5, 1741-1750 (2006).
25. A. L. Dounce, in The Nucleic Acids, E. Chargaff, J. N. Davidson, Eds. (Academic Press, New York, 1955), vol. 2, p. 93.
26. P. Janmey, in Handbook of Biological Physics, R. Lipowsky, E. Sackmann, Eds. (Elsevier Science BV, Amsterdam, 1995), chap. 17.
27. M. Edidin, The state of lipid rafts: From model membranes to cells. Annu. Rev. Biophys. Biomol. Struct. 32, 257-283 (2003).
28. I. C. Morrow, R. G. Parton, Flotillins and the PHB domain protein family: Rafts, worms and anaesthetics. Traffic 6, 725-740 (2005).
29. E. B. Babiychuk, A. Draeger, Biochemical characterization of detergent-resistant membranes: A systematic approach. Biochem. J. 397, 407-416 (2006).
30. K. van Holde, J. Zlatanova, What determines the folding of the chromatin fiber? Proc. Natl. Acad. Sci. U.S.A. 93, 10548-10555 (1996).
31. E. Nishida, Y. Gotoh, The MAP kinase cascade is essential for diverse signal transduction pathways. Trends Biochem. Sci. 18, 128-131 (1993).
32. M. J. Robinson, M. H. Cobb, Mitogen-activated protein kinase pathways. Curr. Opin. Cell Biol. 9, 180-186 (1997).
33. P. J. Roberts, C. J. Der, Targeting the Raf-MEK-ERK mitogen-activated protein kinase cascade for the treatment of cancer. Oncogene 26, 3291-3310 (2007).
34. G. Griffiths, B. Burke, J. Lucocq, in Fine Structure Immunocytochemistry (Springer-Verlag, Berlin, New York, 1993), pp. 27-81.
35. K. L. Dunn, P. S. Espino, B. Drobic, S. He, J. R. Davie, The Ras-MAPK signal transduction pathway, cancer and chromatin remodeling. Biochem. Cell Biol. 83, 1-14 (2003).
36. I. W. Mattaj, L. Englmeier, Nucleocytoplasmic transport: The soluble phase. Annu. Rev. Biochem. 67, 265-306 (1998).
37. L. Warren, Isolation of plasma membrane from tissue culture-L cells. Methods Enzymol. 31 (Pt A), 156-162 (1974).
38. J. H. Hartwig, Actin filament architecture and movements in macrophage cytoplasm. Ciba Found. Symp. 118, 42-53 (1986).
39. P. H. Mangeat, Interaction of biological membranes with the cytoskeletal framework of living cells. Biol. Cell 64, 261-281 (1988).
40. A. Bretscher, Microfilament structure and function in the cortical cytoskeleton. Annu. Rev. Cell Biol. 7, 337-374 (1991).
41. M. P. Sheetz, Cell migration by graded attachment to substrates and contraction. Semin. Cell Biol. 5, 149-155 (1994).
42. C. I. Murray, M. Barrett, J. E. Van Eyk, Assessment of ProteoExtract subcellular fractionation kit reveals limited and incomplete enrichment of nuclear subproteome from frozen liver and heart tissue. Proteomics 9, 3934-3938 (2009).
43. M. T. Maher, A. S. Flozak, A. M. Stocker, A. Chenn, C. J. Gottardi, Activity of the beta-catenin phosphodestruction complex at cell-cell contacts is enhanced by cadherinbased adhesion. J. Cell Biol. 186, 219-228 (2009).