Dicer-dependent biogenesis of small RNAs derived from 7SL RNA

PLoS ONE

Volumn 7, Issue 7, 2012, Pages

  Ren, Yong Feng ^a   Li, Guiling ^a   Wu, Jianmin ^a   Xue, Yong Feng ^a   Song, Yi Jiang ^a   Lv, Lu ^a   Zhang, Xue Jiao ^a   Tang, Kai Fu ^a  

^a WENZHOU MEDICAL UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

DICER; MICRORNA; RECOMBINANT PROTEIN; RNA; SMALL INTERFERING RNA;

ALU SEQUENCE; ARTICLE; CELL STRAIN HEPG2; CONTROLLED STUDY; GENE SILENCING; HUMAN; IN VITRO STUDY; NORTHERN BLOTTING; PROTEIN EXPRESSION; PROTEIN FUNCTION; RNA CLEAVAGE; RNA PROCESSING; RNA SYNTHESIS;

ALU ELEMENTS; ANIMALS; BASE SEQUENCE; DEAD-BOX RNA HELICASES; EPIGENESIS, GENETIC; GENE KNOCKDOWN TECHNIQUES; HEK293 CELLS; HEP G2 CELLS; HUMANS; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; RIBONUCLEASE III; RNA PROCESSING, POST-TRANSCRIPTIONAL; RNA, SMALL CYTOPLASMIC; RNA, SMALL INTERFERING; SIGNAL RECOGNITION PARTICLE;

PRIMATES; RODENTIA;

EID: 84863746951     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0040705     Document Type: Article

References (37)

1. Batzer MA, Deininger PL, (2002) Alu repeats and human genomic diversity. Nat Rev Genet 3: 370-379.
2. Cordaux R, Batzer MA, (2009) The impact of retrotransposons on human genome evolution. Nat Rev Genet 10: 691-703.
3. Hasler J, Samuelsson T, Strub K, (2007) Useful 'junk': Alu RNAs in the human transcriptome. Cell Mol Life Sci 64: 1793-1800.
4. Bernstein E, Caudy AA, Hammond SM, Hannon GJ, (2001) Role for a bidentate ribonuclease in the initiation step of RNA interference. Nature 409: 363-366.
5. Kim VN, Han J, Siomi MC, (2009) Biogenesis of small RNAs in animals. Nat Rev Mol Cell Biol 10: 126-139.
6. Hutvagner G, McLachlan J, Pasquinelli AE, Balint E, Tuschl T, et al. (2001) A cellular function for the RNA-interference enzyme Dicer in the maturation of the let-7 small temporal RNA. Science 293: 834-838.
7. Kaneko H, Dridi S, Tarallo V, Gelfand BD, Fowler BJ, et al. (2011) DICER1 deficit induces Alu RNA toxicity in age-related macular degeneration. Nature 471: 325-330.
8. Kramerov DA, Vassetzky NS, (2011) SINEs. Wiley Interdiscip Rev RNA 2: 772-786.
9. Babiarz JE, Ruby JG, Wang Y, Bartel DP, Blelloch R, (2008) Mouse ES cells express endogenous shRNAs, siRNAs, and other Microprocessor-independent, Dicer-dependent small RNAs. Genes Dev 22: 2773-2785.
10. Calabrese JM, Seila AC, Yeo GW, Sharp PA, (2007) RNA sequence analysis defines Dicer's role in mouse embryonic stem cells. Proc Natl Acad Sci U S A 104: 18097-18102.
11. Tam OH, Aravin AA, Stein P, Girard A, Murchison EP, et al. (2008) Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes. Nature 453: 534-538.
12. Watanabe T, Totoki Y, Toyoda A, Kaneda M, Kuramochi-Miyagawa S, et al. (2008) Endogenous siRNAs from naturally formed dsRNAs regulate transcripts in mouse oocytes. Nature 453: 539-543.
13. Ohnishi Y, Totoki Y, Toyoda A, Watanabe T, Yamamoto Y, et al. (2012) Active role of small non-coding RNAs derived from SINE/B1 retrotransposon during early mouse development. Mol Biol Rep 39: 903-909.
14. Kriegs JO, Churakov G, Jurka J, Brosius J, Schmitz J, (2007) Evolutionary history of 7SL RNA-derived SINEs in Supraprimates. Trends Genet 23: 158-161.
15. Ullu E, Tschudi C, (1984) Alu sequences are processed 7SL RNA genes. Nature 312: 171-172.
16. Egea PF, Stroud RM, Walter P, (2005) Targeting proteins to membranes: structure of the signal recognition particle. Curr Opin Struct Biol 15: 213-220.
17. Halic M, Beckmann R, (2005) The signal recognition particle and its interactions during protein targeting. Curr Opin Struct Biol 15: 116-125.
18. Ritchie W, Legendre M, Gautheret D, (2007) RNA stem-loops: to be or not to be cleaved by RNAse III. RNA 13: 457-462.
19. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ, (1990) Basic local alignment search tool. J Mol Biol 215: 403-410.
20. Li R, Yu C, Li Y, Lam TW, Yiu SM, et al. (2009) SOAP2: an improved ultrafast tool for short read alignment. Bioinformatics 25: 1966-1967.
21. Zamore PD, Tuschl T, Sharp PA, Bartel DP, (2000) RNAi: double-stranded RNA directs the ATP-dependent cleavage of mRNA at 21 to 23 nucleotide intervals. Cell 101: 25-33.
22. Haussecker D, Huang Y, Lau A, Parameswaran P, Fire AZ, et al. (2010) Human tRNA-derived small RNAs in the global regulation of RNA silencing. RNA 16: 673-695.
23. Ender C, Krek A, Friedlander MR, Beitzinger M, Weinmann L, et al. (2008) A human snoRNA with microRNA-like functions. Mol Cell 32: 519-528.
24. Pillai RS, Artus CG, Filipowicz W, (2004) Tethering of human Ago proteins to mRNA mimics the miRNA-mediated repression of protein synthesis. RNA 10: 1518-1525.
25. Liu X, Sempere LF, Ouyang H, Memoli VA, Andrew AS, et al. (2010) MicroRNA-31 functions as an oncogenic microRNA in mouse and human lung cancer cells by repressing specific tumor suppressors. J Clin Invest 120: 1298-1309.
26. Portnoy V, Huang V, Place RF, Li LC, (2011) Small RNA and transcriptional upregulation. Wiley Interdiscip Rev RNA 2: 748-760.
27. Rother S, Meister G, (2011) Small RNAs derived from longer non-coding RNAs. Biochimie 93: 1905-1915.
28. Bishop JM, Levinson WE, Sullivan D, Fanshier L, Quintrell N, et al. (1970) The low molecular weight RNAs of Rous sarcoma virus. II. The 7 S RNA. Virology 42: 927-937.
29. Onafuwa-Nuga AA, Telesnitsky A, King SR, (2006) 7SL RNA, but not the 54-kd signal recognition particle protein, is an abundant component of both infectious HIV-1 and minimal virus-like particles. RNA 12: 542-546.
30. Keene SE, King SR, Telesnitsky A, (2010) 7SL RNA is retained in HIV-1 minimal virus-like particles as an S-domain fragment. J Virol 84: 9070-9077.
31. Wang T, Tian C, Zhang W, Luo K, Sarkis PT, et al. (2007) 7SL RNA mediates virion packaging of the antiviral cytidine deaminase APOBEC3G. J Virol 81: 13112-13124.
32. Wang T, Tian C, Zhang W, Sarkis PT, Yu XF, (2008) Interaction with 7SL RNA but not with HIV-1 genomic RNA or P bodies is required for APOBEC3F virion packaging. J Mol Biol 375: 1098-1112.
33. Bach D, Peddi S, Mangeat B, Lakkaraju A, Strub K, et al. (2008) Characterization of APOBEC3G binding to 7SL RNA. Retrovirology 5: 54.
34. Sells MA, Chen ML, Acs G, (1987) Production of hepatitis B virus particles in Hep G2 cells transfected with cloned hepatitis B virus DNA. Proc Natl Acad Sci U S A 84: 1005-1009.
35. Tang KF, Ren H, Cao J, Zeng GL, Xie J, et al. (2008) Decreased Dicer expression elicits DNA damage and up-regulation of MICA and MICB. J Cell Biol 182: 233-239.
36. Price SR, Ito N, Oubridge C, Avis JM, Nagai K, (1995) Crystallization of RNA-protein complexes. I. Methods for the large-scale preparation of RNA suitable for crystallographic studies. J Mol Biol 249: 398-408.
37. Perron MP, Landry P, Plante I, Provost P, (2011) Detection of human Dicer and Argonaute 2 catalytic activity. Methods Mol Biol 725: 121-141.