Terminal loop-mediated control of microRNA biogenesis

Biochemical Society Transactions

Volumn 40, Issue 4, 2012, Pages 789-793

  Choudhury, Nila Roy ^a   Michlewski, Gracjan ^a  

^a UNIVERSITY OF EDINBURGH   (United Kingdom)

Author keywords

Heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1); KH type splicing regulatory protein (KSRP); Lin28; MCP induced protein 1 (MCPIP1); MicroRNA terminal loop; RNA binding protein

Indexed keywords

DICER; FRAGILE X MENTAL RETARDATION PROTEIN; MICRORNA; RNA BINDING PROTEIN;

BIOGENESIS; CONFERENCE PAPER; GENE CONTROL; HELA CELL; HUMAN; PHYLOGENETIC TREE; PRIORITY JOURNAL; RNA PROCESSING; RNA SEQUENCE; RNA TRANSCRIPTION;

ANIMALS; HETEROGENEOUS-NUCLEAR RIBONUCLEOPROTEIN GROUP A-B; HUMANS; MICRORNAS; RNA-BINDING PROTEINS; TRANS-ACTIVATORS; TRANSCRIPTION FACTORS;

EID: 84864391006     PISSN: 03005127     EISSN: 14708752     Source Type: Journal    
DOI: 10.1042/BST20120053     Document Type: Conference Paper

References (46)

1. Shi, Y., Zhao, X., Hsieh, J., Wichterle, H., Impey, S., Banerjee, S., Neveu, P. and Kosik, K.S. (2010) MicroRNA regulation of neural stem cells and neurogenesis. J. Neurosci. 30, 14931-14936
2. Pauli, A., Rinn, J.L. and Schier, A.F. (2011) Non-coding RNAs as regulators of embryogenesis. Nat. Rev. Genet. 12, 136-149
3. Lee, R.C. and Ambros, V. (2001) An extensive class of small RNAs in Caenorhabditis elegans. Science 294, 862-864 (Pubitemid 33032105)
4. Ketting, R.F., Fischer, S.E., Bernstein, E., Sijen, T., Hannon, G.J. and Plasterk, R.H. (2001) Dicer functions in RNA interference and in synthesis of small RNA involved in developmental timing in C. elegans. Genes Dev. 15, 2654-2659 (Pubitemid 32988876)
5. Kim, V.N., Han, J. and Siomi, M.C. (2009) Biogenesis of small RNAs in animals. Nat. Rev. Mol. Cell Biol. 10, 126-139
6. Zamore, P.D. and Tomari, Y. (2005) MicroRNA biogenesis: drosha can't cut it without a partner. Curr. Biol. 15, R61-R64
7. Lee, Y., Ahn, C., Han, J., Choi, H., Kim, J., Yim, J., Lee, J., Provost, P., Radmark, O., Kim, S. and Kim, V.N. (2003) The nuclear RNase III Drosha initiates microRNA processing. Nature 425, 415-419 (Pubitemid 37187272)
8. Denli, A.M., Tops, B.B., Plasterk, R.H., Ketting, R.F. and Hannon, G.J. (2004) Processing of primary microRNAs by the microprocessor complex. Nature 432, 231-235 (Pubitemid 39545854)
9. Gregory, R.I., Yan, K.P., Amuthan, G., Chendrimada, T., Doratotaj, B., Cooch, N. and Shiekhattar, R. (2004) The Microprocessor complex mediates the genesis of microRNAs. Nature 432, 235-240 (Pubitemid 39545855)
10. Han, J., Lee, Y., Yeom, K.H., Kim, Y.K., Jin, H. and Kim, V.N. (2004) The Drosha-DGCR8 complex in primary microRNA processing. Genes Dev. 18, 3016-3027 (Pubitemid 39658171)
11. Landthaler, M., Yalcin, A. and Tuschl, T. (2004) The human DiGeorge syndrome critical region gene 8 and its D. melanogaster homolog are required for miRNA biogenesis. Curr. Biol. 14, 2162-2167 (Pubitemid 39623200)
12. Lund, E., Guttinger, S., Calado, A., Dahlberg, J.E. and Kutay, U. (2004) Nuclear export of microRNA precursors. Science 303, 95-98 (Pubitemid 38055779)
13. Yi, R., Qin, Y., Macara, I.G. and Cullen, B.R. (2003) Exportin-5 mediates the nuclear export of pre-microRNAs and short hairpin RNAs. Genes Dev. 17, 3011-3016 (Pubitemid 38040764)
14. Hutvagner, G., McLachlan, J., Pasquinelli, A.E., Balint, E., Tuschl, T. and Zamore, P.D. (2001) A cellular function for the RNA-interference enzyme Dicer in the maturation of the let-7 small temporal RNA. Science 293, 834-838 (Pubitemid 32743968)
15. Gregory, R.I., Chendrimada, T.P., Cooch, N. and Shiekhattar, R. (2005) Human RISC couples microRNA biogenesis and posttranscriptional gene silencing. Cell 123, 631-640 (Pubitemid 41608466)
16. Schwarz, D.S., Hutvagner, G., Du, T., Xu, Z., Aronin, N. and Zamore, P.D. (2003) Asymmetry in the assembly of the RNAi enzyme complex. Cell 115, 199-208 (Pubitemid 37329583)
17. Khvorova, A., Reynolds, A. and Jayasena, S.D. (2003) Functional siRNAs and miRNAs exhibit strand bias. Cell 115, 209-216 (Pubitemid 37329584)
18. Hammond, S.M., Bernstein, E., Beach, D. and Hannon, G.J. (2000) An RNA-directed nuclease mediates post-transcriptional gene silencing in Drosophila cells. Nature 404, 293-296 (Pubitemid 30163547)
19. Fabian, M.R., Sonenberg, N. and Filipowicz, W. (2010) Regulation of mRNA translation and stability by microRNAs. Annu. Rev. Biochem. 79, 351-379
20. Eulalio, A., Huntzinger, E., Nishihara, T., Rehwinkel, J., Fauser, M. and Izaurralde, E. (2009) Deadenylation is a widespread effect of miRNA regulation. RNA 15, 21-32
21. Landgraf, P., Rusu, M., Sheridan, R., Sewer, A., Iovino, N., Aravin, A., Pfeffer, S., Rice, A., Kamphorst, A.O., Landthaler, M. et al. (2007) A mammalian microRNA expression atlas based on small RNA library sequencing. Cell 129, 1401-1414 (Pubitemid 46970709)
22. Starega-Roslan, J., Krol, J., Koscianska, E., Kozlowski, P., Szlachcic, W.J., Sobczak, K. and Krzyzosiak, W.J. (2011) Structural basis of microRNA length variety. Nucleic Acids Res. 39, 257-268
23. Ventura, A. and Jacks, T. (2009) MicroRNAs and cancer: short RNAs go a long way. Cell 136, 586-591
24. Siomi, H. and Siomi, M.C. (2010) Posttranscriptional regulation of microRNA biogenesis in animals. Mol. Cell 38, 323-332
25. Krol, J., Loedige, I. and Filipowicz, W. (2010) The widespread regulation of microRNA biogenesis, function and decay. Nat. Rev. Genet. 11, 597-610
26. Bajan, S. and Hutvagner, G. (2011) Another 'loophole' in miRNA processing. Mol. Cell 44, 345-347
27. Zeng, Y., Yi, R. and Cullen, B.R. (2005) Recognition and cleavage of primary microRNA precursors by the nuclear processing enzyme Drosha. EMBO J. 24, 138-148 (Pubitemid 40188471)
28. Krol, J., Sobczak, K., Wilczynska, U., Drath, M., Jasinska, A., Kaczynska, D. and Krzyzosiak, W.J. (2004) Structural features of microRNA (miRNA) precursors and their relevance to miRNA biogenesis and small interfering RNA/short hairpin RNA design. J. Biol. Chem. 279, 42230-42239 (Pubitemid 39313672)
29. Han, J., Lee, Y., Yeom, K.H., Nam, J.W., Heo, I., Rhee, J.K., Sohn, S.Y., Cho, Y., Zhang, B.T. and Kim, V.N. (2006) Molecular basis for the recognition of primary microRNAs by the Drosha-DGCR8 complex. Cell 125, 887-901 (Pubitemid 43810154)
30. Guil, S. and Caceres, J.F. (2007) The multifunctional RNA-binding protein hnRNP A1 is required for processing of miR-18a. Nat. Struct. Mol. Biol. 14, 591-596 (Pubitemid 47037061)
31. Michlewski, G., Guil, S., Semple, C.A. and Caceres, J.F. (2008) Posttranscriptional regulation of miRNAs harboring conserved terminal loops. Mol. Cell 32, 383-393
32. Rybak, A., Fuchs, H., Smirnova, L., Brandt, C., Pohl, E.E., Nitsch, R. and Wulczyn, F.G. (2008) A feedback loop comprising lin-28 and let-7 controls pre-let-7 maturation during neural stem-cell commitment. Nat. Cell Biol. 10, 987-993
33. Viswanathan, S.R., Daley, G.Q. and Gregory, R.I. (2008) Selective blockade of microRNA processing by Lin28. Science 320, 97-100 (Pubitemid 351490762)
34. Heo, I., Joo, C., Cho, J., Ha, M., Han, J. and Kim, V.N. (2008) Lin28 mediates the terminal uridylation of let-7 precursor microRNA. Mol. Cell 32, 276-284
35. Heo, I., Joo, C., Kim, Y.K., Ha, M., Yoon, M.J., Cho, J., Yeom, K.H., Han, J. and Kim, V.N. (2009) TUT4 in concert with Lin28 suppresses microRNA biogenesis through pre-microRNA uridylation. Cell 138, 696-708
36. Jones, M.R., Quinton, L.J., Blahna, M.T., Neilson, J.R., Fu, S., Ivanov, A.R., Wolf, D.A. and Mizgerd, J.P. (2009) Zcchc11-dependent uridylation of microRNA directs cytokine expression. Nat. Cell Biol. 11, 1157-1163
37. Piskounova, E., Polytarchou, C., Thornton, J.E., LaPierre, R.J., Pothoulakis, C., Hagan, J.P., Iliopoulos, D. and Gregory, R.I. (2011) Lin28A and Lin28B inhibit let-7 microRNA biogenesis by distinct mechanisms. Cell 147, 1066-1079
38. Rau, F., Freyermuth, F., Fugier, C., Villemin, J.P., Fischer, M.C., Jost, B., Dembele, D., Gourdon, G., Nicole, A., Duboc, D. et al. (2011) Misregulation of miR-1 processing is associated with heart defects in myotonic dystrophy. Nat. Struct. Mol. Biol. 18, 840-845
39. Trabucchi, M., Briata, P., Garcia-Mayoral, M., Haase, A.D., Filipowicz, W., Ramos, A., Gherzi, R. and Rosenfeld, M.G. (2009) The RNA-binding protein KSRP promotes the biogenesis of a subset of microRNAs. Nature 459, 1010-1014
40. Michlewski, G. and Caceres, J.F. (2010) Antagonistic role of hnRNP A1 and KSRP in the regulation of let-7a biogenesis. Nat. Struct. Mol. Biol. 17, 1011-1018
41. Suzuki, H.I., Arase, M., Matsuyama, H., Choi, Y.L., Ueno, T., Mano, H., Sugimoto, K. and Miyazono, K. (2011) MCPIP1 ribonuclease antagonizes dicer and terminates microRNA biogenesis through precursor microRNA degradation. Mol. Cell 44, 424-436
42. Xu, X.L., Zong, R., Li, Z., Biswas, M.H., Fang, Z., Nelson, D.L. and Gao, F.B. (2011) FXR1P but not FMRP regulates the levels of mammalian brain-specific microRNA-9 and microRNA-124. J. Neurosci. 31, 13705-13709
43. Buratti, E., De Conti, L., Stuani, C., Romano, M., Baralle, M. and Baralle, F. (2010) Nuclear factor TDP-43 can affect selected microRNA levels. FEBS J. 277, 2268-2281
44. Lebedeva, S., Jens, M., Theil, K., Schwanhausser, B., Selbach, M., Landthaler, M. and Rajewsky, N. (2011) Transcriptome-wide analysis of regulatory interactions of the RNA-binding protein HuR. Mol. Cell 43, 340-352
45. Michlewski, G. and Caceres, J.F. (2010) RNase-assisted RNA chromatography. RNA 16, 1673-1678
46. Zhu, H., Shyh-Chang, N., Segre, A.V., Shinoda, G., Shah, S.P., Einhorn, W.S., Takeuchi, A., Engreitz, J.M., Hagan, J.P., Kharas, M.G. et al. (2011) The Lin28/let-7 axis regulates glucose metabolism. Cell 147, 81-94