Inhibition and avoidance of mRNA degradation by RNA viruses

Current Opinion in Microbiology

Volumn 15, Issue 4, 2012, Pages 500-505

  Moon, Stephanie L ^a   Barnhart, Michael D ^a   Wilusz, Jeffrey ^a  

^a Department of Environmental and Radiological Health Sciences   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA; MICRORNA; RIBOSOME RNA;

EXOSOME; FLAVIVIRUS; GENE EXPRESSION REGULATION; HUMAN; NONHUMAN; RABIES VIRUS; REVIEW; RNA DEGRADATION; RNA STABILITY; RNA TRANSCRIPTION; RNA TRANSLATION; RNA VIRUS; VIRUS CELL INTERACTION;

ANIMALS; CELL PHYSIOLOGICAL PROCESSES; EXORIBONUCLEASES; HUMANS; RNA STABILITY; RNA VIRUSES; RNA, MESSENGER; RNA, VIRAL;

RNA VIRUSES;

EID: 84865297493     PISSN: 13695274     EISSN: 18790364     Source Type: Journal    
DOI: 10.1016/j.mib.2012.04.009     Document Type: Review

References (53)

1. Munchel S.E., Shultzaberger R.K., Takizawa N., Weis K. Dynamic profiling of mRNA turnover reveals gene-specific and system-wide regulation of mRNA decay. Mol Biol Cell 2011, 22:2787-2795.
2. Schwanhäusser B., Busse D., Li N., Dittmar G., Schuchhardt J., Wolf J., Chen W., Selbach M. Global quantification of mammalian gene expression control. Nature 2011, 472:337-342.
3. Shcherbik N., Wang M., Lapik Y.R., Srivastava L., Pestov D.G. Polyadenylation and degradation of incomplete RNA polymerase I transcripts in mammalian cells. EMBO Rep 2010, 11:106-111.
4. Clark M.B., Johnston R.L., Inostroza-Ponta M., Fox A.H., Fortini E., Moscato P., Dinger M.E., Mattick J.S. Genome-wide analysis of long noncoding RNA stability. Genome Res 2012, 22:885-989.
5. Chen C.Y., Shyu A.B. Mechanisms of deadenylation-dependent decay. Wiley Interdiscip Rev RNA 2011, 2:167-183.
6. Fabian M.R., Cieplak M.K., Frank F., Morita M., Green J., Srikumar T., Nagar B., Yamamoto T., Raught B., Duchaine T.F., Sonenberg N. miRNA-mediated deadenylation is orchestrated by GW182 through two conserved motifs that interact with CCR4-NOT. Nat Struct Mol Biol 2011, 18:1211-1217.
7. Collart M.A., Panasenko O.O. The Ccr4-not complex. Gene 2012, 492:42-53.
8. Chowdhury A., Raju K.K., Kalurupalle S., Tharun S. Both Sm-domain and C-terminal extension of Lsm1 are important for the RNA-binding activity of the Lsm1-7-Pat1 complex. RNA 2012, 18:936-944.
9. Li Y., Song M., Kiledjian M. Differential utilization of decapping enzymes in mammalian mRNA decay pathways. RNA 2011, 17:419-428.
10. Chang J.H., Xiang S., Xiang K., Manley J.L., Tong L. Structural and biochemical studies of the 5'→3' exoribonuclease Xrn1. Nat Struct Mol Biol 2011, 18:270-276.
11. Zheng D., Chen C.Y., Shyu A.B. Unraveling regulation and new components of human P-bodies through a protein interaction framework and experimental validation. RNA 2011, 17:1619-1634.
12. Lykke-Andersen S., Tomecki R., Jensen T.H., Dziembowski A. The eukaryotic RNA exosome: same scaffold but variable catalytic subunits. RNA Biol 2011, 8:61-66.
13. Halbach F., Rode M., Conti E. The crystal structure of S. cerevisiae Ski2, a DExH helicase associated with the cytoplasmic functions of the exosome. RNA 2012, 18:124-134.
14. Liu S.W., Rajagopal V., Patel S.S., Kiledjian M. Mechanistic and kinetic analysis of the DcpS scavenger decapping enzyme. J Biol Chem 2008, 283:16427-16436.
15. Schoenberg D.R. Mechanisms of endonuclease-mediated mRNA decay. Wiley Interdiscip Rev RNA 2011, 2:582-600.
16. Chakrabarti A., Jha B.K., Silverman R.H. New insights into the role of RNase L in innate immunity. J Interferon Cytokine Res 2011, 31:49-57.
17. Davidson B.L., McCray P.B. Current prospects for RNA interference-based therapies. Nat Rev Genet 2011, 12:329-340.
18. Yepiskoposyan H., Aeschimann F., Nilsson D., Okoniewski M., Mühlemann O. Autoregulation of the nonsense-mediated mRNA decay pathway in human cells. RNA 2011, 17:2108-2118.
19. Schaeffer D., van Hoof A. Different nuclease requirements for exosome-mediated degradation of normal and nonstop mRNAs. Proc Natl Acad Sci U S A 2011, 108:2366-2371.
20. Becker T., Armache J.P., Jarasch A., Anger A.M., Villa E., Sieber H., Motaal B.A., Mielke T., Berninghausen O., Beckmann R. Structure of the no-go mRNA decay complex Dom34-Hbs1 bound to a stalled 80S ribosome. Nat Struct Mol Biol 2011, 18:715-720.
21. Martin K.L., Johnson M., D'Aquila R.T. APOBEC3G complexes decrease human immunodeficiency virus type 1 production. J Virol 2011, 85:9314-9326.
22. Ibrahim F., Rohr J., Jeong W.J., Hesson J., Cerutti H. Untemplated oligoadenylation promotes degradation of RISC-cleaved transcripts. Science 2006, 314:1893.
23. Kratochvill F., Machacek C., Vogl C., Ebner F., Sedlyarov V., Gruber A.R., Hartweger H., Vielnascher R., Karaghiosoff M., Rülicke T., et al. Tristetraprolin-driven regulatory circuit controls quality and timing of mRNA decay in inflammation. Mol Syst Biol 2011, 7:560.
24. Gratacós F.M., Brewer G. The role of AUF1 in regulated mRNA decay. Wiley Interdiscip Rev RNA 2010, 1:457-473.
25. Gherzi R., Chen C.Y., Trabucchi M., Ramos A., Briata P. The role of KSRP in mRNA decay and microRNA precursor maturation. Wiley Interdiscip Rev RNA 2010, 1:230-239.
26. Palanisamy V., Jakymiw A., Van Tubergen E.A., D'Silva N.J., Kirkwood K.L. Control of cytokine mRNA expression by RNA-binding proteins and microRNAs. J Dent Res 2012, in press.
27. Mukherjee N., Corcoran D.L., Nusbaum J.D., Reid D.W., Georgiev S., Hafner M., Ascano M., Tuschl T., Ohler U., Keene J.D. Integrative regulatory mapping indicates that the RNA-binding protein HuR couples pre-mRNA processing and mRNA stability. Mol Cell 2011, 43:327-339.
28. Xin Z., Han W., Zhao Z., Xia Q., Yin B., Yuan J., Peng X. PCBP2 enhances the antiviral activity of IFN-α against HCV by stabilizing the mRNA of STAT1 and STAT2. PLoS One 2011, 6:e25419.
29. Schmidt M.J., West S., Norbury C.J. The human cytoplasmic RNA terminal U-transferase ZCCHC11 targets histone mRNAs for degradation. RNA 2011, 17:39-44.
30. Dougherty J.D., White J.P., Lloyd R.E. Poliovirus-mediated disruption of cytoplasmic processing bodies. J Virol 2011, 85:64-75.
31. Garneau N.L., Sokoloski K.J., Opyrchal M., Neff C.P., Wilusz C.J., Wilusz J. The 3' untranslated region of sindbis virus represses deadenylation of viral transcripts in mosquito and mammalian cells. J Virol 2008, 82:880-892.
32. Sokoloski K.J., Dickson A.M., Chaskey E.L., Garneau N.L., Wilusz C.J., Wilusz J. Sindbis virus usurps the cellular HuR protein to stabilize its transcripts and promote productive infections in mammalian and mosquito cells. Cell Host Microbe 2010, 8:196-207.
33. Mitton-Fry R.M., DeGregorio S.J., Wang J., Steitz T.A., Steitz J.A. Poly(A) tail recognition by a viral RNA element through assembly of a triple helix. Science 2010, 330:1244-1247.
34. Cheng C.P., Jaag H.M., Jonczyk M., Serviene E., Nagy P.D. Expression of the Arabidopsis Xrn4p 5'-3' exoribonuclease facilitates degradation of tombusvirus RNA and promotes rapid emergence of viral variants in plants. Virology 2007, 368:238-248.
35. Jones D.M., Domingues P., Targett-Adams P., McLauchlan J. Comparison of U2OS and Huh-7 cells for identifying host factors that affect hepatitis C virus RNA replication. J Gen Virol 2010, 91:2238-2248.
36. Funk A., Truong K., Nagasaki T., Torres S., Floden N., Balmori Melian E., Edmonds J., Dong H., Shi P.Y., Khromykh A.A. RNA structures required for production of subgenomic flavivirus RNA. J Virol 2010, 84:11407-11417.
37. Silva P.A., Pereira C.F., Dalebout T.J., Spaan W.J., Bredenbeek P.J. An RNA pseudoknot is required for production of yellow fever virus subgenomic RNA by the host nuclease XRN1. J Virol 2010, 84:11395-11406.
38. Burdick R., Smith J.L., Chaipan C., Friew Y., Chen J., Venkatachari N.J., Delviks-Frankenberry K.A., Hu W.S., Pathak V.K. P body-associated protein Mov10 inhibits HIV-1 replication at multiple stages. J Virol 2010, 84:10241-10253.
39. Galão R.P., Chari A., Alves-Rodrigues I., Lobão D., Mas A., Kambach C., Fischer U., Díez J. LSm1-7 complexes bind to specific sites in viral RNA genomes and regulate their translation and replication. RNA 2010, 16:817-827.
40. Ariumi Y., Kuroki M., Kushima Y., Osugi K., Hijikata M., Maki M., Ikeda M., Kato N. Hepatitis C virus hijacks P-body and stress granule components around lipid droplets. J Virol 2011, 85:6882-6892.
41. Beckham C.J., Parker R. P bodies, stress granules, and viral life cycles. Cell Host Microbe 2008, 3:206-212.
42. Ward A.M., Bidet K., Yinglin A., Ler S.G., Hogue K., Blackstock W., Gunaratne J., Garcia-Blanco M.A. Quantitative mass spectrometry of DENV-2 RNA-interacting proteins reveals that the DEAD-box RNA helicase DDX6 binds the DB1 and DB2 3' UTR structures. RNA Biol 2011, 8:1173-1186.
43. Emara M.M., Brinton M.A. Interaction of TIA-1/TIAR with West Nile and dengue virus products in infected cells interferes with stress granule formation and processing body assembly. Proc Natl Acad Sci U S A 2007, 104:9041-9046.
44. Cheng C.P., Serviene E., Nagy P.D. Suppression of viral RNA recombination by a host exoribonuclease. J Virol 2006, 80:2631-2640.
45. Shimakami T., Yamane D., Jangra R.K., Kempf B.J., Spaniel C., Barton D.J., Lemon S.M. Stabilization of hepatitis C virus RNA by an Ago2-miR-122 complex. Proc Natl Acad Sci U S A 2012, 109:941-946.
46. Wilson J.A., Zhang C., Huys A., Richardson C.D. Human Ago2 is required for efficient microRNA 122 regulation of hepatitis C virus RNA accumulation and translation. J Virol 2011, 85:2342-2350.
47. Ford L.P., Wilusz J. 3'-Terminal RNA structures and poly(U) tracts inhibit initiation by a 3'→5' exonuclease in vitro. Nucleic Acids Res 1999, 27:1159-1167.
48. Townsend H.L., Jha B.K., Han J.Q., Maluf N.K., Silverman R.H., Barton D.J. A viral RNA competitively inhibits the antiviral endoribonuclease domain of RNase L. RNA 2008, 14:1026-1036.
49. Withers J.B., Beemon K.L. The structure and function of the Rous sarcoma virus RNA stability element. J Cell Biochem 2011, 112:3085-3092.
50. Palusa S., Ndaluka C., Bowen R.A., Wilusz C.J., Wilusz J. The 3' untranslated region of the rabies virus glycoprotein mRNA specifically interacts with cellular PCBP2 protein and promotes transcript stability. PLoS One 2012, 7:e33561.
51. Fujimura T., Esteban R. Cap-snatching mechanism in yeast L-A double-stranded RNA virus. Proc Natl Acad Sci U S A 2011, 108:17667-17671.
52. Huang C., Lokugamage K.G., Rozovics J.M., Narayanan K., Semler B.L., Makino S. SARS coronavirus nsp1 protein induces template-dependent endonucleolytic cleavage of mRNAs: viral mRNAs are resistant to nsp1-induced RNA cleavage. PLoS Pathog 2011, 7:e1002433.
53. Schott J., Stoecklin G. Networks controlling mRNA decay in the immune system. Wiley Interdiscip Rev RNA 2010, B1:432-456.