Reduced Expression of Argonaute 1, Argonaute 2, and TRBP Changes Levels and Intracellular Distribution of RNAi Factors

Scientific Reports

Volumn 5, Issue , 2015, Pages

  Matsui, Masayuki ^a   Li, Liande ^a   Janowski, Bethany A ^a   Corey, David R ^a  

^a UNIVERSITY OF TEXAS SOUTHWESTERN MEDICAL CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARGONAUTE PROTEIN; AUTOANTIGEN; AUTOANTIGEN GW182, HUMAN; DEAD BOX PROTEIN; DICER1 PROTEIN, HUMAN; EIF2C1 PROTEIN, HUMAN; EIF2C2 PROTEIN, HUMAN; INITIATION FACTOR; RIBONUCLEASE III; RNA BINDING PROTEIN; TRANS-ACTIVATION RESPONSIVE RNA-BINDING PROTEIN;

CELL NUCLEUS; ENZYMOLOGY; GENE SILENCING; GENETICS; HUMAN; METABOLISM; PROTEIN TRANSPORT; RNA INTERFERENCE; TUMOR CELL LINE;

ARGONAUTE PROTEINS; AUTOANTIGENS; CELL LINE, TUMOR; CELL NUCLEUS; DEAD-BOX RNA HELICASES; EUKARYOTIC INITIATION FACTORS; GENE KNOCKDOWN TECHNIQUES; HUMANS; PROTEIN TRANSPORT; RIBONUCLEASE III; RNA INTERFERENCE; RNA-BINDING PROTEINS;

EID: 84938787192     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep12855     Document Type: Article

References (48)

1. Batsché, E. & Ameyar-Zazoua, M. The influence of Argonaute proteins on alternative splicing. WIRE's RNA. doi: 10.1002/ wrna.1264 (2014).
2. Roberts, T. C. The microRNA biology of the mammalian nucleus. Mol. Ther. Nucleic Acids 3, e188 (2014).
3. Huang, V. & Li, L.-C. Demystifying the nuclear function of Argonaute proteins. RNA Biol. 11, 18-24 (2014).
4. Alló, M. et al. Control of alternative splicing through siRNA-mediated transcriptional gene silencing. Nat. Struct. Mol. Biol. 16, 717-724 (2009).
5. Ameyar-Zazoua, M. et al. (2012). Argonaute proteins couple chromatin silencing to alternative splicing. Nat. Struc. Mol. Biol. 19, 998-1004 (2012).
6. Liu, J., Hu, J. & Corey, D. R. (2012). Expanding the action of duplex RNAs into the nucleus: redirecting alternative splicing. Nucleic Acids Res. 40, 1240-1250 (2012).
7. Morris, K. V., Chan, S. W.-L., Jacobsen, S. E. & Looney, D. J. Small interfering RNA-induced transcriptional gene silencing in human cells. Science 305, 1289-1292 (2004).
8. Li, L.-C. et al. Small dsRNAs induce transcriptional activation in human cells. Proc. Natl. Acad. Sci. USA 103, 17337-17342 (2006).
9. Janowski, B. A. et al. Activating gene expression in mammalian cells with promoter-targeted duplex RNAs. Nat. Chem. Biol. 3, 166-173 (2007).
10. Morris, K. V., Santoso, S., Turner, A.-M., Pastori, C. & Hawkins, P. G. Bidirectional transcription directs both transcriptional gene activation and suppression in human cells. PLoS Genet. 4, e1000258 (2008).
11. Janowski, B. A. et al. Inhibiting gene expression at transcription start sites in chromosomal DNA with antigene RNAs. Nat. Chem. Biol. 1, 216-222 (2005).
12. Ting, A. H., Schuebel, K. E., Herman, J. G. & Baylin, S. B. Short double-stranded RNA induces transcriptional gene silencing in human cancer cells in the absence of DNA methylation. Nat. Genet. 37, 906-910 (2005).
13. Napoli, S., Pastori, C., Magistri, M., Carbone, G. M. & Catapano, C. V. Promoter-specifci transcriptional interference and cmyc gene silencing by siRNAs in human cells. EMBO J. 28, 1708-1719 (2009).
14. Kim, D. H., Villeneuve, L. M., Morris, K. V. & Rossi, J. J. Argonaute-1 directs siRNA mediated transcriptional gene silencing in human cells. Nat. Struct. Mol. Biol. 13, 793-797 (2006).
15. Janowski, B. A. et al. Involvement of AGO1 and AGO2 in mammalian transcriptional silencing. Nat. Struct. Mol. Biol. 13, 787-792 (2006).
16. Chu, Y., Yue, X., Younger, S. T., Janowski, B. A. & Corey, D. R. Involvement of argonaute proteins in gene silencing and activation by RNAs complementary to a non-coding transcript at the progesterone receptor promoter. Nucleic Acids Res. 38, 7736-7748 (2010).
17. Schwartz, J. C. et al. Antisense transcripts are targets for activating small RNAs. Nat. Struct. Mol. Biol. 15, 842-848 (2008).
18. Hawkins, P. G., Santoso, S., Adams, C., Anest, V. & Morris, K. V. Promoter targeted small RNAs induce long-term transcriptional gene silencing in human cells. Nucleic Acids Res. 37, 2984-2995 (2009).
19. Matsui, M. et al. Promoter RNA links transcriptional regulation of inflammatory pathway genes. Nucleic Acids Res. 41, 10086-10109 (2013).
20. Zhang, X., Li, H., Burnett, J. C. & Rossi, J. J. The role of antisenes long noncoding RNA in small RNA-triggered gene activation. RNA 20, 1916-1928 (2014).
21. Kim, D. H., Sætrom, P., Snøve, O. Jr. & Rossi, J. J. MicroRNA-directed transcriptional gene silencing in mammalian cells. Proc. Natl. Acad. Sci. USA 105, 16230-16235 (2008).
22. Younger, S. T. & Corey, D. R. Transcriptional gene silencing in mammalian cells by miRNA mimics that target gene promoters. Nucleic Acids Res. 39, 5682-5691 (2011).
23. Gagnon, K. T. & Corey, D. R. Argonaute and the nuclear RNAs: new pathways for RNA-mediated control of gene expression. Nucleic Acid Ther. 22, 3-16 (2012).
24. Castel, S. E. & Martienssen, R. A. RNA interference in the nucleus: roles for small RNAs in transcription, epigenetics and beyond. Nat. Rev. Genet. 14, 100-112 (2013).
25. Cecere, G. & Grishok, A. A nuclear perspective on RNAi pathways in metazoans. Biochim. Biophys. Acta 1839, 223-233 (2014).
26. Zeng, Y. & Cullen, B. R. RNA interference in human cells is restricted to the cytoplasm. RNA 8, 855-860 (2002).
27. Holding, C. RNAi active in the nucleus? The Scientist. (2005) Available at: http://www.the-scientist.com/?articles.view/ articleNo/23231/title/RNAi-active-in-the-nucleus-/ (Accessed: 25th June 2015)
28. Liu, J. et al. Argonaute2 is the catalytic engine of mammalian RNAi. Science 305, 1437-1441 (2004).
29. Meister, G. et al. Human argonaute2 mediates RNA cleavage targeted by miRNAs and siRNAs. Mol. Cell 15, 185-197 (2004).
30. Robb, G. B., Brown, K. M., Khurana, J. & Rana, T. M. Specific and potent RNAi in the nucleus of human cells. Nat. Struc. Mol Biol. 12, 133-137 (2005).
31. Ohrt, T. et al. Fluorescence correlation spectroscopy and fluorescence cross-correlation spectroscopy reveal the cytoplasmic origination of loaded nuclear RISC in vivo in human cells. Nucleic Acids Res. 36, 6439-6449 (2008).
32. Gagnon, K. T., Li, L., Chu, Y., Janowski, B. A. & Corey, D. R. RNAi factors are present and active in human cell nuclei. Cell Reports 6, 211-221 (2014).
33. Schraivogel, D. & Meister, G. Import routes and nuclear functions of Argonaute and other small RNA-silencing proteins. Trends Biochem. Sci. 39, 420-431 (2014).
34. Stalder, L. et al. The rough endoplasmatic reticulum is a central nucleation site of siRNA-mediated RNA silencing. EMBO J. 32, 1115-1127 (2013).
35. Gagnon, K. T., Li, L., Janowski, B. A. & Corey D. R. Analysis of nuclear RNA Interference in human cells by subcellular fractionation and Argonaute loading. Nat. Protoc. 9, 2045-2060 (2014).
36. Pfaff, J. & Meister, G. Argonaute and GW182 proteins: an effective alliance in gene silencing. Biochem. Soc. Trans. 41, 855-860 (2013).
37. Ruda, V. M. et al. The roles of individual mammalian argonautes in RNA interference in vivo. PLoS ONE 9, e101749 (2014).
38. Liu, J. et al. A role for the p-body component GW182 in microRNA function. Nat. Cell Biol. 7, 1261-1266 (2005).
39. Pauley, K. M. et al. Formation of GW bodies is a consequence of microRNA genesis. EMBO Rep. 7, 904-910 (2006).
40. Nishi, K., Nishi, A., Nagasawa, T. & Ui-Tei, K. Human TNRC6A is an Argonaute-navigator protein for microRNA-mediated gene silencing in the nucleus. RNA 19, 17-35 (2013).
41. Daniels, S. M. & Gatignol, A. The multiple functions of TRBP, at the hub of cell responses to viruses, stress, and cancer. Microbiol. Mol. Biol. Rev. 76, 652-666 (2012).
42. Takahashi, T. et al. Interactions between the non-seed region of siRNA and RNA-binding RLC/RISC proteins, AGO, and TRBP, in mammalian cells. Nucleic Acids Res. 42, 5256-5269 (2014).
43. Redfern, A. D. et al. RNA-induced silencing complex (RISC) proteins PACT, TRBP, and Dicer are SRA binding nuclear receptor coregulators. Proc. Natl. Acad. Sci. USA 110, 6536-6541 (2013).
44. Foulkes, W. D., Priest, J. R. & Duchaine, R. F. DICER1: mutations, microRNAs and mechanisms. Nat. Rev. Cancer 14, 662-672 (2014).
45. Haase, A. D. et al. TRBP, a regulator of cellular PKR and HIV-1 virus expression, interacts with Dicer and functions in RNA silencing. EMBO Rep. 6, 961-967 (2005).
46. Daniels, S. M. et al. Characterization of the TRBP domain required for Dicer interaction and function in RNA interference. BMC Mol. Biol. 10, 38 (2009).
47. Ma, E., MacRae, I. J., Kirsch, J. F. & Doudna, J. A. Autoinhibition of human Dicer by its internal helicase domain. J. Mol. Biol. 380, 237-243 (2008).
48. Chendrimada, T. P. et al. TRBP recruits the Dicer complex to Ago2 for microRNA processing and gene silencing. Nature 436, 740-744 (2005).