A 5′-uridine amplifies miRNA/miRNA* asymmetry in Drosophila by promoting RNA-induced silencing complex formation

Silence

Volumn 2, Issue 1, 2011, Pages

  Seitz, Hervé ^a,b   Tushir, Jogender S ^c   Zamore, Phillip D ^c  

^a Université Paul Sabatier   (France)

^b CNRS   (France)

^c UNIVERSITY OF MASSACHUSETTS MEDICAL SCHOOL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARGONAUTE 1 PROTEIN; ARGONAUTE PROTEIN; MICRORNA; SINGLE STRANDED RNA; URIDINE;

ANIMAL CELL; ARTICLE; CONTROLLED STUDY; DNA FLANKING REGION; DROSOPHILA MELANOGASTER; GENE FUNCTION; GENE SEQUENCE; GENE SILENCING; HIGH THROUGHPUT SEQUENCING; NONHUMAN; PHYLOGENY; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN CROSS LINKING; PROTEIN FUNCTION; RNA PROCESSING; SEQUENCE ANALYSIS;

EID: 84856542174     PISSN: None     EISSN: 1758907X     Source Type: Journal    
DOI: 10.1186/1758-907X-2-4     Document Type: Article

References (30)

1. Ghildiyal M, Zamore PD. Small silencing RNAs: an expanding universe. Nat Rev Genet 2009, 10:94-108. 10.1038/nrg2504, 2724769, 19148191.
2. Bartel DP. MicroRNAs: target recognition and regulatory functions. Cell 2009, 136:215-233. 10.1016/j.cell.2009.01.002, 19167326.
3. Ma JB, Yuan YR, Meister G, Pei Y, Tuschl T, Patel DJ. Structural basis for 5′-end-specific recognition of guide RNA by the A. fulgidus Piwi protein. Nature 2005, 434:666-670. 10.1038/nature03514, 15800629.
4. Parker JS, Roe SM, Barford D. Structural insights into mRNA recognition from a PIWI domain-siRNA guide complex. Nature 2005, 434:663-666. 10.1038/nature03462, 2938470, 15800628.
5. Tomari Y, Du T, Zamore PD. Sorting of Drosophila small silencing RNAs. Cell 2007, 130:299-308. 10.1016/j.cell.2007.05.057, 2841505, 17662944.
6. 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. 10.1038/nsmb.1630, 19684602.
7. Matranga C, Tomari Y, Shin C, Bartel DP, Zamore PD. Passenger-strand cleavage facilitates assembly of siRNA into Ago2-containing RNAi enzyme complexes. Cell 2005, 123:607-620. 10.1016/j.cell.2005.08.044, 16271386.
8. Miyoshi K, Tsukumo H, Nagami T, Siomi H, Siomi MC. Slicer function of Drosophila Argonautes and its involvement in RISC formation. Genes Dev 2005, 19:2837-2848. 10.1101/gad.1370605, 1315391, 16287716.
9. Rand TA, Petersen S, Du F, Wang X. Argonaute2 cleaves the anti-guide strand of siRNA during RISC activation. Cell 2005, 123:621-629. 10.1016/j.cell.2005.10.020, 16271385.
10. Leuschner PJ, Ameres SL, Kueng S, Martinez J. Cleavage of the siRNA passenger strand during RISC assembly in human cells. EMBO Rep 2006, 7:314-320. 10.1038/sj.embor.7400637, 1456892, 16439995.
11. Khvorova A, Reynolds A, Jayasena SD. Functional siRNAs and miRNAs exhibit strand bias. Cell 2003, 115:209-216. 10.1016/S0092-8674(03)00801-8, 14567918.
12. Schwarz DS, Hutvágner G, Du T, Xu Z, Aronin N, Zamore PD. Asymmetry in the assembly of a the RNAi enzyme complex. Cell 2003, 115:199-208. 10.1016/S0092-8674(03)00759-1, 14567917.
13. Mi S, Cai T, Hu Y, Chen Y, Hodges E, Ni F, Wu L, Li S, Zhou H, Long C, Chen S, Hannon GJ, Qi Y. Sorting of small RNAs into Arabidopsis Argonaute complexes is directed by the 5′ terminal nucleotide. Cell 2008, 133:116-127. 10.1016/j.cell.2008.02.034, 2981139, 18342361.
14. Montgomery TA, Howell MD, Cuperus JT, Li D, Hansen JE, Alexander AL, Chapman EJ, Fahlgren N, Allen E, Carrington JC. Specificity of ARGONAUTE7-miR390 interaction and dual functionality in TAS3 trans-acting siRNA formation. Cell 2008, 133:128-141. 10.1016/j.cell.2008.02.033, 18342362.
15. Takeda A, Iwasaki S, Watanabe T, Utsumi M, Watanabe Y. The mechanism selecting the guide strand from small RNA duplexes is different among Argonaute proteins. Plant Cell Physiol 2008, 49:493-500. 10.1093/pcp/pcn043, 18344228.
16. Ghildiyal M, Seitz H, Horwich MD, Li C, Du T, Lee S, Xu J, Kittler EL, Zapp ML, Weng Z, Zamore PD. Endogenous siRNAs derived from transposons and mRNAs in Drosophila somatic cells. Science 2008, 320:1077-1081. 10.1126/science.1157396, 2953241, 18403677.
17. Czech B, Zhou R, Erlich Y, Brennecke J, Binari R, Villalta C, Gordon A, Perrimon N, Hannon GJ. Hierarchical rules for Argonaute loading in Drosophila. Mol Cell 2009, 36:445-456. 10.1016/j.molcel.2009.09.028, 2795325, 19917252.
18. Okamura K, Liu N, Lai EC. Distinct mechanisms for microRNA strand selection by Drosophila Argonautes. Mol Cell 2009, 36:431-444. 10.1016/j.molcel.2009.09.027, 2785079, 19917251.
19. Ghildiyal M, Xu J, Seitz H, Weng Z, Zamore PD. Sorting of Drosophila small silencing RNAs partitions microRNA* strands into the RNA interference pathway. RNA 2010, 16:43-56. 10.1261/rna.1972910, 2802036, 19917635.
20. 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. 10.1038/nature09039, 20505670.
21. Förstemann K, Horwich MD, Wee L, Tomari Y, Zamore PD. Drosophila microRNAs are sorted into functionally distinct Argonaute complexes after production by Dicer-1. Cell 2007, 130:287-297. 10.1016/j.cell.2007.05.056, 2686109, 17662943.
22. Steiner FA, Hoogstrate SW, Okihara KL, Thijssen KL, Ketting RF, Plasterk RH, Sijen T. Structural features of small RNA precursors determine Argonaute loading in Caenorhabditis elegans. Nat Struct Mol Biol 2007, 14:927-933. 10.1038/nsmb1308, 17891148.
23. Jannot G, Boisvert ME, Banville IH, Simard MJ. Two molecular features contribute to the Argonaute specificity for the microRNA and RNAi pathways in C. elegans. RNA 2008, 14:829-835. 10.1261/rna.901908, 2327357, 18367718.
24. Hu HY, Yan Z, Xu Y, Hu H, Menzel C, Zhou YH, 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, 2751786, 19732433.
25. Ameres SL, Hung JH, Xu J, Weng Z, Zamore PD. Target RNA-directed tailing and trimming purifies the sorting of endo-siRNAs between the two Drosophila Argonaute proteins. RNA 2011, 17:54-63. 10.1261/rna.2498411, 3004066, 21106652.
26. Czech B, Hannon GJ. Small RNA sorting: matchmaking for Argonautes. Nat Rev Genet 2011, 12:19-31.
27. 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. 10.1016/j.molcel.2010.05.015, 20605501.
28. Johnston M, Geoffroy MC, Sobala A, Hay R, Hutvágner G. HSP90 protein stabilizes unloaded Argonaute complexes and microscopic P-bodies in human cells. Mol Biol Cell 2010, 21:1462-1469. 10.1091/mbc.E09-10-0885, 2861606, 20237157.
29. Seitz H, Ghildiyal M, Zamore PD. Argonaute loading improves the 5′ precision of both microRNAs and their miRNA* strands in flies. Curr Biol 2008, 18:147-151. 10.1016/j.cub.2007.12.049, 2854039, 18207740.
30. Haley B, Tang G, Zamore PD. In vitro analysis of RNA interference in Drosophila melanogaster. Methods 2003, 30:330-336. 10.1016/S1046-2023(03)00052-5, 12828947.