Detection of viral RNA by fluorescence in situ hybridization (FISH)

Journal of Visualized Experiments

Volumn , Issue 63, 2012, Pages

  Vyboh, Kishanda ^a,b   Ajamian, Lara ^a,b   Mouland, Andrew J ^a,b  

^a MCGILL UNIVERSITY   (Canada)

^b MCGILL UNIVERSITY   (Canada)

Author keywords

FISH; Fluorescence in situ hybridization; Genetics; Genomics; Imaging; Viral genomic RNA

Indexed keywords

MESSENGER RNA; VIRUS RNA;

ARTICLE; CHEMISTRY; FLUORESCENCE IN SITU HYBRIDIZATION; GENETIC TRANSFECTION; GENETICS; HELA CELL; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS 1; METHODOLOGY; RNA PROBE;

HELA CELLS; HIV-1; HUMANS; IN SITU HYBRIDIZATION, FLUORESCENCE; RNA PROBES; RNA, MESSENGER; RNA, VIRAL; TRANSFECTION;

EID: 84863763633     PISSN: 1940087X     EISSN: None     Source Type: Journal    
DOI: 10.3791/4002     Document Type: Article

References (24)

1. Lehmann, M., et al. Intracellular transport of human immunodeficiency virus type 1 genomic RNA and viral production are dependent on dynein motor function and late endosome positioning. J. Biol. Chem. 284, 14572-14585, doi: 10.1074/jbc.M808531200 [pii] M808531200 (2009).
2. Zurla, C., Lifland, A.W., & Santangelo, P.J. Characterizing mRNA interactions with RNA granules during translation initiation inhibition. PLoS One. 6, e19727, doi:10.1371/journal.pone.0019727 [pii] PONE-D-11-00285 (2011).
3. Abrahamyan, L.G., et al. Novel Staufen1 ribonucleoproteins prevent formation of stress granules but favour encapsidation of HIV-1 genomic RNA. J. Cell Sci. 123, 369-383, doi: 10.1242/jcs.055897 [pii] jcs.055897 (2010).
4. Milev, M.P., Brown, C.M., & Mouland, A J. Live cell visualization of the interactions between HIV-1 Gag and the cellular RNA-binding protein Staufen1. Retrovirology. 7, 41, doi:10.1186/1742-4690-7-41 (2010).
5. Vercruysse, T., et al. Measuring cooperative Rev protein-protein interactions on Rev responsive RNA by fluorescence resonance energy transfer. RNA Biol. 8, 316-324 (2011).
6. Cullen, B.R. Nuclear mRNA export: insights from virology. Trends Biochem. Sci. 28, 419-424 (2003).
7. Cmarko, D., et al. Rev inhibition strongly affects intracellular distribution of human immunodeficiency virus type 1 RNAs. J Virol. 76, 10473-10484 (2002).
8. Ajamian, L., et al. Unexpected roles for UPF1 in HIV-1 RNA metabolism and translation. RNA. 14, 914-927, doi: 10.1261/rna.829208 [pii] rna.829208 (2008).
9. Beriault, V., et al. A late role for the association of hnRNP A2 with the HIV-1 hnRNP A2 response elements in genomic RNA, Gag, and Vpr localization. J. Biol. Chem. 279, 44141-44153, doi:10.1074/jbc.M404691200 [pii] M404691200 (2004).
10. Monette, A., Pante, N., & Mouland, A.J. HIV-1 remodels the nuclear pore complex. J. Cell Biol. 193, 619-631, doi:10.1083/jcb.201008064 (2011).
11. Jordens, I., et al. The Rab7 effector protein RILP controls lysosomal transport by inducing the recruitment of dynein-dynactin motors. Curr. Biol. 11, 1680-1685 (2001).
12. Schrader, M., King, S.J., Stroh, T.A., & Schroer, T.A. Real time imaging reveals a peroxisomal reticulum in living cells. J. Cell Sci. 113 (Pt. 20), 3663-3671 (2000).
13. Levesque, K., et al. Trafficking of HIV-1 RNA is mediated by heterogeneous nuclear ribonucleoprotein A2 expression and impacts on viral assembly. Traffic. 7, 1177-1193 (2006).
14. Rocha, N., et al. Cholesterol sensor ORP1L contacts the ER protein VAP to control Rab7-RILP-p150 Glued and late endosome positioning. J. Cell Biol. 185, 1209-1225, doi:10.1083/jcb.200811005 (2009).
15. Soros, V.B., Carvajal, H.V., Richard, S., & Cochrane, A.W. Inhibition of human immunodeficiency virus type 1 Rev function by a dominant-negative mutant of Sam68 through sequestration of unspliced RNA at perinuclear bundles. J. Virol. 75, 8203-8215 (2001).
16. Sanchez-Velar, N., Udofia, E.B., Yu, Z., & Zapp, M.L. HRIP, a cellular cofactor for Rev function, promotes release of HIV RNAs from the perinuclear region. Genes Dev. 18, 23-34, doi:10.1101/gad.1149704 [pii] 1149704 (2004).
17. Monette, A., Ajamian, L., Lopez-Lastra, M., & Mouland, A.J. Human immunodeficiency virus type 1 (HIV-1) induces the cytoplasmic retention of heterogeneous nuclear ribonucleoprotein A1 by disrupting nuclear import: implications for HIV-1 gene expression. J. Biol. Chem. 284, 31350-31362, doi: 10.1074/jbc.M109.048736 [pii] M109.048736 (2009).
18. Malim, M.H., Hauber, J., Le, S.Y., Maizel, J.V., & Cullen, B.R. The HIV-1 rev trans-activator acts through a structured target sequence to activate nuclear export of unspliced viral mRNA. Nature. 338, 254-257, doi:10.1038/338254a0 (1989).
19. Klein, K.C., Reed, J.C., & Lingappa, J.R. Intracellular destinies: degradation, targeting, assembly, and endocytosis of HIV Gag. AIDS Rev. 9, 150-161 (2007).
20. Molle, D., et al. Endosomal trafficking of HIV-1 gag and genomic RNAs regulates viral egress. J. Biol. Chem. 284, 19727-19743, doi: 10.1074/jbc.M109.019844 [pii] M109.019844 (2009).
21. Jouvenet, N., Bieniasz, P.D., & Simon, S.M. Imaging the biogenesis of individual HIV-1 virions in live cells. Nature. 454, 236-240, doi: 10.1038/nature06998 [pii] nature06998 (2008).
22. Kemler, I., Meehan, A., & Poeschla, E.M. Live-cell coimaging of the genomic RNAs and Gag proteins of two lentiviruses. J. Virol. 84, 6352-6366, [pii] JVI.00363-10 (2010).
23. Paige, J.S., Wu, K.Y., & Jaffrey, S.R. RNA mimics of green fluorescent protein. Science. 333, 642-646, doi: 10.1126/science.1207339 [pii] 333/6042/642 (2011).
24. Eckhardt, M., et al. A SNAP-tagged derivative of HIV-1--a versatile tool to study virus-cell interactions. PLoS One. 6, e22007, doi:10.1371/journal.pone.0022007 [pii] PONE-D-11-06412 (2011).