Tandem array-based expression screens identify host mRNA targets of virus-encoded microRNAs

Nature Genetics

Volumn 41, Issue 1, 2009, Pages 130-134

  Ziegelbauer, Joseph M ^a,b,d   Sullivan, Christopher S ^c   Ganem, Don ^a,b  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

^c UNIVERSITY OF TEXAS AT AUSTIN   (United States)

^d NATIONAL CANCER INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

GENE PRODUCT; MESSENGER RNA; MICRORNA; TRANSCRIPTION FACTOR; TRANSCRIPTION FACTOR BCLAF1; UNCLASSIFIED DRUG; VIRUS RNA;

ARTICLE; CONTROLLED STUDY; GENE EXPRESSION PROFILING; GENE LOCUS; GENETIC SCREENING; GENETIC TRANSCRIPTION; HUMAN; HUMAN CELL; HUMAN HERPESVIRUS 8; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; TANDEM REPEAT; VIRUS CELL INTERACTION; VIRUS LATENCY;

APOPTOSIS; BASE SEQUENCE; CELL LINE; DNA-BINDING PROTEINS; ENDOTHELIAL CELLS; GENE EXPRESSION REGULATION; GENES, REPORTER; HERPESVIRUS 8, HUMAN; HUMANS; MICRORNAS; MOLECULAR SEQUENCE DATA; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; REPRESSOR PROTEINS; RNA, MESSENGER; RNA, VIRAL; TUMOR SUPPRESSOR PROTEINS;

HUMAN HERPESVIRUS 8;

EID: 58149151064     PISSN: 10614036     EISSN: 15461718     Source Type: Journal    
DOI: 10.1038/ng.266     Document Type: Article

References (30)

1. Landgraf, P. et al. A mammalian microRNA expression atlas based on small RNA library sequencing. Cell 129, 1401-1414 (2007).
2. Pfeffer, S. et al. Identification of microRNAs of the herpesvirus family. Nat. Methods 2, 269-276 (2005).
3. Sullivan, C. & Ganem, D. MicroRNAs and viral infection. Mol. Cell 20, 3-7 (2005).
4. Stern-Ginossar, N. et al. Host immune system gene targeting by a viral miRNA. Science 317, 376-381 (2007).
5. Cai, X. et al. Kaposi's sarcoma-associated herpesvirus expresses an array of viral microRNAs in latently infected cells. Proc. Natl. Acad. Sci. USA 102, 5570-5575 (2005).
6. Samols, M.A., Hu, J., Skalsky, R.L. & Renne, R. Cloning and identification of a microRNA cluster within the latency-associated region of Kaposi's sarcoma-associated herpesvirus. J. Virol. 79, 9301-9305 (2005).
7. Grundhoff, A., Sullivan, C. & Ganem, D. A combined computational and microarray-based approach identifies novel microRNAs encoded by human gamma-herpesviruses. RNA 12, 733-750 (2006).
8. Samols, M. et al. Identification of cellular genes targeted by KSHV-encoded micro-RNAs. PLoS Pathog. 3, e65 (2007).
9. Skalsky, R.L. et al. Kaposi's sarcoma-associated herpesvirus encodes an ortholog of miR-155. J. Virol. 81, 12836-12845 (2007).
10. Gottwein, E. et al. A viral microRNA functions as an orthologue of cellular miR-155. Nature 450, 1096-1099 (2007).
11. Krützfeldt, J. et al. Silencing of microRNAs in vivo with 'antagomirs'. Nature 438, 685-689 (2005).
12. Giraldez, A.J. et al. Zebrafish MiR-430 promotes deadenylation and clearance of maternal mRNAs. Science 312, 75-79 (2006).
13. Lim, L. et al. Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs. Nature 433, 769-773 (2005).
14. Rodriguez, A. et al. Requirement of bic/microRNA-155 for normal immune function. Science 316, 608-611 (2007).
15. Meister, G., Landthaler, M., Dorsett, Y. & Tuschl, T. Sequence-specific inhibition of microRNA- and siRNA-induced RNA silencing. RNA 10, 544-550 (2004).
16. Hutvagner, G., Simard, M.J., Mello, C.C. & Zamore, P.D. Sequence-specific inhibition of small RNA function. PLoS Biol. 2, E98 (2004).
17. Grimson, A. et al. MicroRNA targeting specificity in mammals: determinants beyond seed pairing. Mol. Cell 27, 91-105 (2007).
18. Selbach, M. et al. Widespread changes in protein synthesis induced by microRNAs. Nature 455, 58-63 (2008).
19. Baek, D. et al. The impact of microRNAs on protein output. Nature 455, 64-71 (2008).
20. Gottwein, E., Cai, X. & Cullen, B.R. A novel assay for viral microRNA function identifies a single nucleotide polymorphism that affects Drosha processing. J. Virol. 80, 5321-5326 (2006).
21. Didiano, D. & Hobert, O. Perfect seed pairing is not a generally reliable predictor for miRNA-target interactions. Nat. Struct. Mol. Biol. 13, 849-851 (2006).
22. Reinhart, B.J. et al. The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans. Nature 403, 901-906 (2000).
23. Yekta, S., Shih, I.H. & Bartel, D.P. MicroRNA-directed cleavage of HOXB8 mRNA. Science 304, 594-596 (2004).
24. Kasof, G., Goyal, L. & White, E. Btf, a novel death-promoting transcriptional repressor that interacts with Bcl-2-related proteins. Mol. Cell. Biol. 19, 4390-4404 (1999).
25. Lewis, B., Burge, C. & Bartel, D. Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell 120, 15-20 (2005).
26. Jopling, C., Yi, M., Lancaster, A., Lemon, S. & Sarnow, P. Modulation of hepatitis C virus RNA abundance by a liver-specific microRNA. Science 309, 1577-1581 (2005).
27. Offermann, M.K. Kaposi sarcoma herpesvirus-encoded interferon regulator factors. Curr. Top. Microbiol. Immunol. 312, 185-209 (2007).
28. Oliver, F.J. et al. Importance of poly(ADP-ribose) polymerase and its cleavage in apoptosis. Lesson from an uncleavable mutant. J. Biol. Chem. 273, 33533-33539 (1998).
29. Vieira, J. & O'Hearn, P.M. Use of the red fluorescent protein as a marker of Kaposi's sarcoma-associated herpesvirus lytic gene expression. Virology 325, 225-240 (2004).
30. Murphy, E., Vanicek, J., Robins, H., Shenk, T. & Levine, A.J. Suppression of immediate-early viral gene expression by herpesvirus-coded microRNAs: implications for latency. Proc. Natl. Acad. Sci. USA 105, 5453-5458 (2008).