Precursor MicroRNA-Programmed Silencing Complex Assembly Pathways in Mammals

Molecular Cell

Volumn 46, Issue 4, 2012, Pages 507-517

  Liu, Xuhang ^a,b   Jin, Dong Yan ^c   McManus, Michael T ^d   Mourelatos, Zissimos ^a,b  

^a UNIVERSITY OF PENNSYLVANIA   (United States)

^b UNIVERSITY OF PENNSYLVANIA   (United States)

^c UNIVERSITY OF HONG KONG   (Hong Kong)

^d UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DICER; MIRNA LOADING COMPLEX; MIRNA PRECURSOR DEPOIT COMPLEX; RNA INDUCED SILENCING COMPLEX; RNA PRECURSOR; UNCLASSIFIED DRUG;

ANIMAL CELL; ARTICLE; BIOGENESIS; CELL LYSATE; IN VIVO STUDY; MAMMAL; MOUSE; NONHUMAN; PROTEIN ASSEMBLY; PROTEIN EXPRESSION; RNA PROCESSING;

ANIMALS; ARGONAUTE PROTEINS; BASE SEQUENCE; CELL LINE; DEAD-BOX RNA HELICASES; MICE; MICE, KNOCKOUT; MICRORNAS; MODELS, BIOLOGICAL; PROTEIN MULTIMERIZATION; RIBONUCLEASE III; RNA PROCESSING, POST-TRANSCRIPTIONAL; RNA-INDUCED SILENCING COMPLEX;

MAMMALIA;

EID: 84861448419     PISSN: 10972765     EISSN: 10974164     Source Type: Journal    
DOI: 10.1016/j.molcel.2012.03.010     Document Type: Article

References (56)

1. Azuma-Mukai A., Oguri H., Mituyama T., Qian Z.R., Asai K., Siomi H., Siomi M.C. Characterization of endogenous human Argonautes and their miRNA partners in RNA silencing. Proc. Natl. Acad. Sci. USA 2008, 105:7964-7969.
2. Bennasser Y., Chable-Bessia C., Triboulet R., Gibbings D., Gwizdek C., Dargemont C., Kremer E.J., Voinnet O., Benkirane M. Competition for XPO5 binding between Dicer mRNA, pre-miRNA and viral RNA regulates human Dicer levels. Nat. Struct. Mol. Biol. 2011, 18:323-327.
3. Cheloufi S., Dos Santos C.O., Chong M.M., Hannon G.J. A dicer-independent miRNA biogenesis pathway that requires Ago catalysis. Nature 2010, 465:584-589.
4. Cifuentes D., Xue H., Taylor D.W., Patnode H., Mishima Y., Cheloufi S., Ma E., Mane S., Hannon G.J., Lawson N.D., et al. A novel miRNA processing pathway independent of Dicer requires Argonaute2 catalytic activity. Science 2010, 328:1694-1698.
5. Diederichs S., Haber D.A. Dual role for argonautes in microRNA processing and posttranscriptional regulation of microRNA expression. Cell 2007, 131:1097-1108.
6. Djuranovic S., Nahvi A., Green R. A parsimonious model for gene regulation by miRNAs. Science 2011, 331:550-553.
7. Frank F., Sonenberg N., Nagar B. Structural basis for 5'-nucleotide base-specific recognition of guide RNA by human AGO2. Nature 2010, 465:818-822.
8. Gregory R.I., Chendrimada T.P., Cooch N., Shiekhattar R. Human RISC couples microRNA biogenesis and posttranscriptional gene silencing. Cell 2005, 123:631-640.
9. Grishok A., Pasquinelli A.E., Conte D., Li N., Parrish S., Ha I., Baillie D.L., Fire A., Ruvkun G., Mello C.C. Genes and mechanisms related to RNA interference regulate expression of the small temporal RNAs that control C. elegans developmental timing. Cell 2001, 106:23-34.
10. Hammond S.M., Bernstein E., Beach D., Hannon G.J. An RNA-directed nuclease mediates post-transcriptional gene silencing in Drosophila cells. Nature 2000, 404:293-296.
11. Harfe B.D., McManus M.T., Mansfield J.H., Hornstein E., Tabin C.J. The RNaseIII enzyme Dicer is required for morphogenesis but not patterning of the vertebrate limb. Proc. Natl. Acad. Sci. USA 2005, 102:10898-10903.
12. Hu H.Y., Yan Z., Xu Y., Hu H., Menzel C., Zhou Y.H., Chen W., Khaitovich P. Sequence features associated with microRNA strand selection in humans and flies. BMC Genomics 2009, 10:413. 10.1186/1471-2164-10-413.
13. Hutvagner G., Zamore P.D. A microRNA in a multiple-turnover RNAi enzyme complex. Science 2002, 297:2056-2060.
14. Hutvagner G., McLachlan J., Pasquinelli A.E., Balint E., Tuschl T., Zamore P.D. A cellular function for the RNA-interference enzyme Dicer in the maturation of the let-7 small temporal RNA. Science 2001, 293:834-838.
15. Iki T., Yoshikawa M., Nishikiori M., Jaudal M.C., Matsumoto-Yokoyama E., Mitsuhara I., Meshi T., Ishikawa M. In vitro assembly of plant RNA-induced silencing complexes facilitated by molecular chaperone HSP90. Mol. Cell 2010, 39:282-291.
16. Iwasaki S., Kobayashi M., Yoda M., Sakaguchi Y., Katsuma S., Suzuki T., Tomari Y. Hsc70/Hsp90 chaperone machinery mediates ATP-dependent RISC loading of small RNA duplexes. Mol. Cell 2010, 39:292-299.
17. Kawamata T., Tomari Y. Making RISC. Trends Biochem. Sci. 2010, 35:368-376.
18. Kawamata T., Seitz H., Tomari Y. Structural determinants of miRNAs for RISC loading and slicer-independent unwinding. Nat. Struct. Mol. Biol. 2009, 16:953-960.
19. Kawamata T., Yoda M., Tomari Y. Multilayer checkpoints for microRNA authenticity during RISC assembly. EMBO Rep. 2011, 12:944-949.
20. Ketting R.F., Fischer S.E., Bernstein E., Sijen T., Hannon G.J., Plasterk R.H. Dicer functions in RNA interference and in synthesis of small RNA involved in developmental timing in C. elegans. Genes Dev. 2001, 15:2654-2659.
21. Khvorova A., Reynolds A., Jayasena S.D. Functional siRNAs and miRNAs exhibit strand bias. Cell 2003, 115:209-216.
22. Knight S.W., Bass B.L. A role for the RNase III enzyme DCR-1 in RNA interference and germ line development in Caenorhabditis elegans. Science 2001, 293:2269-2271.
23. Krol J., Loedige I., Filipowicz W. The widespread regulation of microRNA biogenesis, function and decay. Nat. Rev. Genet. 2010, 11:597-610.
24. Leuschner P.J., Ameres S.L., Kueng S., Martinez J. Cleavage of the siRNA passenger strand during RISC assembly in human cells. EMBO Rep. 2006, 7:314-320.
25. Liu J., Carmell M.A., Rivas F.V., Marsden C.G., Thomson J.M., Song J.J., Hammond S.M., Joshua-Tor L., Hannon G.J. Argonaute2 is the catalytic engine of mammalian RNAi. Science 2004, 305:1437-1441.
26. Ma J.B., Yuan Y.R., Meister G., Pei Y., Tuschl T., Patel D.J. Structural basis for 5'-end-specific recognition of guide RNA by the A. fulgidus Piwi protein. Nature 2005, 434:666-670.
27. MacRae I.J., Ma E., Zhou M., Robinson C.V., Doudna J.A. In vitro reconstitution of the human RISC-loading complex. Proc. Natl. Acad. Sci. USA 2008, 105:512-517.
28. Maniataki E., Mourelatos Z. A human, ATP-independent, RISC assembly machine fueled by pre-miRNA. Genes Dev. 2005, 19:2979-2990.
29. Martinez J., Patkaniowska A., Urlaub H., Luhrmann R., Tuschl T. Single-stranded antisense siRNAs guide target RNA cleavage in RNAi. Cell 2002, 110:563-574.
30. Matranga C., Tomari Y., Shin C., Bartel D.P., Zamore P.D. Passenger-strand cleavage facilitates assembly of siRNA into Ago2-containing RNAi enzyme complexes. Cell 2005, 123:607-620.
31. Meister G., Landthaler M., Patkaniowska A., Dorsett Y., Teng G., Tuschl T. Human Argonaute2 mediates RNA cleavage targeted by miRNAs and siRNAs. Mol. Cell 2004, 15:185-197.
32. Miyoshi K., Tsukumo H., Nagami T., Siomi H., Siomi M.C. Slicer function of Drosophila Argonautes and its involvement in RISC formation. Genes Dev. 2005, 19:2837-2848.
33. Miyoshi K., Okada T.N., Siomi H., Siomi M.C. Characterization of the miRNA-RISC loading complex and miRNA-RISC formed in the Drosophila miRNA pathway. RNA 2009, 15:1282-1291.
34. Miyoshi T., Takeuchi A., Siomi H., Siomi M.C. A direct role for Hsp90 in pre-RISC formation in Drosophila. Nat. Struct. Mol. Biol. 2010, 17:1024-1026.
35. Mourelatos Z., Dostie J., Paushkin S., Sharma A., Charroux B., Abel L., Rappsilber J., Mann M., Dreyfuss G. miRNPs: a novel class of ribonucleoproteins containing numerous microRNAs. Genes Dev. 2002, 16:720-728.
36. Noland C.L., Ma E., Doudna J.A. siRNA repositioning for guide strand selection by human Dicer complexes. Mol. Cell 2011, 43:110-121.
37. Nykanen A., Haley B., Zamore P.D. ATP requirements and small interfering RNA structure in the RNA interference pathway. Cell 2001, 107:309-321.
38. Parker J.S., Roe S.M., Barford D. Structural insights into mRNA recognition from a PIWI domain-siRNA guide complex. Nature 2005, 434:663-666.
39. Pham J.W., Pellino J.L., Lee Y.S., Carthew R.W., Sontheimer E.J. A Dicer-2-dependent 80s complex cleaves targeted mRNAs during RNAi in Drosophila. Cell 2004, 117:83-94.
40. Pillai R.S., Artus C.G., Filipowicz W. Tethering of human Ago proteins to mRNA mimics the miRNA-mediated repression of protein synthesis. RNA 2004, 10:1518-1525.
41. Rand T.A., Petersen S., Du F., Wang X. Argonaute2 cleaves the anti-guide strand of siRNA during RISC activation. Cell 2005, 123:621-629.
42. Rivas F.V., Tolia N.H., Song J.J., Aragon J.P., Liu J., Hannon G.J., Joshua-Tor L. Purified Argonaute2 and an siRNA form recombinant human RISC. Nat. Struct. Mol. Biol. 2005, 12:340-349.
43. Sasaki T., Shimizu N. Evolutionary conservation of a unique amino acid sequence in human DICER protein essential for binding to Argonaute family proteins. Gene 2007, 396:312-320.
44. Schwarz D.S., Hutvagner G., Du T., Xu Z., Aronin N., Zamore P.D. Asymmetry in the assembly of the RNAi enzyme complex. Cell 2003, 115:199-208.
45. * asymmetry in Drosophila by promoting RNA-induced silencing complex formation. Silence 2011, 2:4. 10.1186/1758-907X-2-4.
46. Siomi H., Siomi M.C. On the road to reading the RNA-interference code. Nature 2009, 457:396-404.
47. Tahbaz N., Kolb F.A., Zhang H., Jaronczyk K., Filipowicz W., Hobman T.C. Characterization of the interactions between mammalian PAZ PIWI domain proteins and Dicer. EMBO Rep. 2004, 5:189-194.
48. Tan G.S., Garchow B.G., Liu X., Yeung J., Morris J.P.t., Cuellar T.L., McManus M.T., Kiriakidou M. Expanded RNA-binding activities of mammalian Argonaute 2. Nucleic Acids Res. 2009, 37:7533-7545.
49. Tomari Y., Du T., Haley B., Schwarz D.S., Bennett R., Cook H.A., Koppetsch B.S., Theurkauf W.E., Zamore P.D. RISC assembly defects in the Drosophila RNAi mutant armitage. Cell 2004, 116:831-841.
50. Tomari Y., Matranga C., Haley B., Martinez N., Zamore P.D. A protein sensor for siRNA asymmetry. Science 2004, 306:1377-1380.
51. Trabucchi M., Briata P., Garcia-Mayoral M., Haase A.D., Filipowicz W., Ramos A., Gherzi R., Rosenfeld M.G. The RNA-binding protein KSRP promotes the biogenesis of a subset of microRNAs. Nature 2009, 459:1010-1014.
52. Wang H.W., Noland C., Siridechadilok B., Taylor D.W., Ma E., Felderer K., Doudna J.A., Nogales E. Structural insights into RNA processing by the human RISC-loading complex. Nat. Struct. Mol. Biol. 2009, 16:1148-1153.
53. Wu L., Fan J., Belasco J.G. Importance of translation and nonnucleolytic ago proteins for on-target RNA interference. Curr. Biol. 2008, 18:1327-1332.
54. Yang J.S., Maurin T., Robine N., Rasmussen K.D., Jeffrey K.L., Chandwani R., Papapetrou E.P., Sadelain M., O'Carroll D., Lai E.C. Conserved vertebrate mir-451 provides a platform for Dicer-independent, Ago2-mediated microRNA biogenesis. Proc. Natl. Acad. Sci. USA 2010, 107:15163-15168.
55. Yoda M., Kawamata T., Paroo Z., Ye X., Iwasaki S., Liu Q., Tomari Y. ATP-dependent human RISC assembly pathways. Nat. Struct. Mol. Biol. 2010, 17:17-23.
56. Zhang H., Kolb F.A., Jaskiewicz L., Westhof E., Filipowicz W. Single processing center models for human Dicer and bacterial RNase III. Cell 2004, 118:57-68.