RNA-mediated degradation of microRNAs: A widespread viral strategy?

References

• Guo YE, Steitz JA. Virus meets host microRNA: the destroyer, the booster, the hijacker. Mol Cell Biol 2014; 34:3780-7; PMID:25047834; http://dx.doi.org/10.1128/MCB.00871-14
   PubMed Web of Science ®Google Scholar
• Kim VN, Han J, Siomi MC. Biogenesis of small RNAs in animals. Nat Rev Mol Cell Biol 2009; 10:126-39; PMID:19165215; http://dx.doi.org/10.1038/nrm2632
   PubMed Web of Science ®Google Scholar
• Fabian MR, Sonenberg N. The mechanics of miRNA-mediated gene silencing: a look under the hood of miRISC. Nat Struct Mol Biol 2012; 19:586-93; PMID:22664986; http://dx.doi.org/10.1038/nsmb.2296
   PubMed Web of Science ®Google Scholar
• Bartel DP. MicroRNAs: target recognition and regulatory functions. Cell 2009; 136:215-33; PMID:19167326; http://dx.doi.org/10.1016/j.cell.2009.01.002
   PubMed Web of Science ®Google Scholar
• Friedman RC, Farh KK, Burge CB, Bartel DP. Most mammalian mRNAs are conserved targets of microRNAs. Genome Res 2009; 19:92-105; PMID:18955434; http://dx.doi.org/10.1101/gr.082701.108
   PubMed Web of Science ®Google Scholar
• Grundhoff A, Sullivan CS. Virus-encoded microRNAs. Virology 2011; 411:325-43; PMID:21277611; http://dx.doi.org/10.1016/j.virol.2011.01.002
   PubMed Web of Science ®Google Scholar
• Skalsky RL, Cullen BR. Viruses, microRNAs, and host interactions. Annu Rev Microbiol 2010; 64:123-41; PMID:20477536; http://dx.doi.org/10.1146/annurev.micro.112408.134243
   PubMed Web of Science ®Google Scholar
• Cullen BR. Viral and cellular messenger RNA targets of viral microRNAs. Nature 2009; 457:421-5; PMID:19158788; http://dx.doi.org/10.1038/nature07757
   PubMed Web of Science ®Google Scholar
• Franco-Zorrilla JM, Valli A, Todesco M, Mateos I, Puga MI, Rubio-Somoza I, Leyva A, Weigel D, García JA, Paz-Ares J. Target mimicry provides a new mechanism for regulation of microRNA activity. Nat Genet 2007; 39:1033-7; PMID:17643101; http://dx.doi.org/10.1038/ng2079
   PubMed Web of Science ®Google Scholar
• Figueroa-Bossi N, Valentini M, Malleret L, Fiorini F, Bossi L. Caught at its own game: regulatory small RNA inactivated by an inducible transcript mimicking its target. Genes Dev 2009; 23:2004-15; PMID:19638370; http://dx.doi.org/10.1101/gad.541609
   PubMed Web of Science ®Google Scholar
• Overgaard M, Johansen J, Moller-Jensen J, Valentin-Hansen P. Switching off small RNA regulation with trap-mRNA. Mol Microbiol 2009; 73:790-800; PMID:19682266; http://dx.doi.org/10.1111/j.1365-2958.2009.06807.x
   PubMed Web of Science ®Google Scholar
• Seitz H. Redefining microRNA targets. Curr Biol 2009; 19:870-3; PMID:19375315; http://dx.doi.org/10.1016/j.cub.2009.03.059
   PubMed Web of Science ®Google Scholar
• Tay Y, Rinn J, Pandolfi PP. The multilayered complexity of ceRNA crosstalk and competition. Nature 2014; 505:344-52; PMID:24429633; http://dx.doi.org/10.1038/nature12986
   PubMed Web of Science ®Google Scholar
• Denzler R, Agarwal V, Stefano J, Bartel DP, Stoffel M. Assessing the ceRNA hypothesis with quantitative measurements of miRNA and target abundance. Mol Cell 2014; 54:766-76; PMID:24793693; http://dx.doi.org/10.1016/j.molcel.2014.03.045
   PubMed Web of Science ®Google Scholar
• Broderick JA, Zamore PD. Competitive endogenous RNAs cannot alter microRNA function in vivo. Mol Cell 2014; 54:711-3; PMID:24905003; http://dx.doi.org/10.1016/j.molcel.2014.05.023
   PubMed Web of Science ®Google Scholar
• Ebert MS, Neilson JR, Sharp PA. MicroRNA sponges: competitive inhibitors of small RNAs in mammalian cells. Nat Methods 2007; 4:721-6; PMID:17694064; http://dx.doi.org/10.1038/nmeth1079
   PubMed Web of Science ®Google Scholar
• Buck AH, Perot J, Chisholm MA, Kumar DS, Tuddenham L, Cognat V, Marcinowski L, Dölken L, Pfeffer S. Post-transcriptional regulation of miR-27 in murine cytomegalovirus infection. RNA 2010; 16:307-15; PMID:20047990; http://dx.doi.org/10.1261/rna.1819210
   PubMed Web of Science ®Google Scholar
• Bail S, Swerdel M, Liu H, Jiao X, Goff LA, Hart RP, Kiledjian M. Differential regulation of microRNA stability. Rna 2010; 16:1032-9; PMID:20348442; http://dx.doi.org/10.1261/rna.1851510
   PubMed Web of Science ®Google Scholar
• Libri V, Helwak A, Miesen P, Santhakumar D, Borger JG, Kudla G, Grey F, Tollervey D, Buck AH. Murine cytomegalovirus encodes a miR-27 inhibitor disguised as a target. Proc Natl Acad Sci U S A 2012; 109:279-84; PMID:22184245; http://dx.doi.org/10.1073/pnas.1114204109
   PubMed Web of Science ®Google Scholar
• Marcinowski L, Tanguy M, Krmpotic A, Radle B, Lisnic VJ, Tuddenham L, Chane-Woon-Ming B, Ruzsics Z, Erhard F, Benkartek C, et al. Degradation of cellular miR-27 by a novel, highly abundant viral transcript is important for efficient virus replication in vivo. PLoS Pathog 2012; 8:e1002510; PMID:22346748
   PubMed Web of Science ®Google Scholar
• Cazalla D, Yario T, Steitz JA. Down-regulation of a host microRNA by a Herpesvirus saimiri noncoding RNA. Science 2010; 328:1563-6; PMID:20558719; http://dx.doi.org/10.1126/science.1187197
   PubMed Web of Science ®Google Scholar
• Lee S, Song J, Kim S, Kim J, Hong Y, Kim Y, Kim D, Baek D, Ahn K. Selective degradation of host MicroRNAs by an intergenic HCMV noncoding RNA accelerates virus production. Cell Host Microbe 2013; 13:678-90; PMID:23768492; http://dx.doi.org/10.1016/j.chom.2013.05.007
   PubMedGoogle Scholar
• Zhang Z, Qin YW, Brewer G, Jing Q. MicroRNA degradation and turnover: regulating the regulators. Wiley Interdiscip Rev RNA 2012; 3:593-600; PMID:22461385; http://dx.doi.org/10.1002/wrna.1114
   PubMed Web of Science ®Google Scholar
• Ruegger S, Grosshans H. MicroRNA turnover: when, how, and why. Trends Biochem Sci 2012; 37:436-46; PMID:22921610; http://dx.doi.org/10.1016/j.tibs.2012.07.002
   PubMed Web of Science ®Google Scholar
• Kai ZS, Pasquinelli AE. MicroRNA assassins: factors that regulate the disappearance of miRNAs. Nat Struct Mol Biol 2010; 17:5-10; PMID:20051982; http://dx.doi.org/10.1038/nsmb.1762
   PubMed Web of Science ®Google Scholar
• Arvey A, Larsson E, Sander C, Leslie CS, Marks DS. Target mRNA abundance dilutes microRNA and siRNA activity. Mol Syst Biol 2010; 6:363; PMID:20404830; http://dx.doi.org/10.1038/msb.2010.24
   PubMed Web of Science ®Google Scholar
• Tay Y, Kats L, Salmena L, Weiss D, Tan SM, Ala U, Karreth F, Poliseno L, Provero P, Di Cunto F, et al. Coding-independent regulation of the tumor suppressor PTEN by competing endogenous mRNAs. Cell 2011; 147:344-57; PMID:22000013; http://dx.doi.org/10.1016/j.cell.2011.09.029
   PubMed Web of Science ®Google Scholar
• Sumazin P, Yang X, Chiu HS, Chung WJ, Iyer A, Llobet-Navas D, Rajbhandari P, Bansal M, Guarnieri P, Silva J, et al. An extensive microRNA-mediated network of RNA-RNA interactions regulates established oncogenic pathways in glioblastoma. Cell 2011; 147:370-81; PMID:22000015; http://dx.doi.org/10.1016/j.cell.2011.09.041
   PubMed Web of Science ®Google Scholar
• Cook HL, Mischo HE, Steitz JA. The Herpesvirus saimiri small nuclear RNAs recruit AU-rich element-binding proteins but do not alter host AU-rich element-containing mRNA levels in virally transformed T cells. Mol Cell Biol 2004; 24:4522-33; PMID:15121869; http://dx.doi.org/10.1128/MCB.24.10.4522-4533.2004
   PubMed Web of Science ®Google Scholar
• Lee YS, Pressman S, Andress AP, Kim K, White JL, Cassidy JJ, Li X, Lubell K, Lim do H, Cho IS, et al. Silencing by small RNAs is linked to endosomal trafficking. Nat Cell Biol 2009; 11:1150-6; PMID:19684574; http://dx.doi.org/10.1038/ncb1930
   PubMed Web of Science ®Google Scholar
• Gibbings DJ, Ciaudo C, Erhardt M, Voinnet O. Multivesicular bodies associate with components of miRNA effector complexes and modulate miRNA activity. Nat Cell Biol 2009; 11:1143-9; PMID:19684575; http://dx.doi.org/10.1038/ncb1929
   PubMed Web of Science ®Google Scholar
• Pyhtila B, Zheng T, Lager PJ, Keene JD, Reedy MC, Nicchitta CV. Signal sequence- and translation-independent mRNA localization to the endoplasmic reticulum. Rna 2008; 14:445-53; PMID:18192611; http://dx.doi.org/10.1261/rna.721108
   PubMed Web of Science ®Google Scholar
• Squadrito ML, Baer C, Burdet F, Maderna C, Gilfillan GD, Lyle R, Ibberson M, De Palma M. Endogenous RNAs modulate microRNA sorting to exosomes and transfer to acceptor cells. Cell Rep 2014; 8:1432-46; PMID:25159140; http://dx.doi.org/10.1016/j.celrep.2014.07.035
   PubMed Web of Science ®Google Scholar
• Ameres SL, Horwich MD, Hung JH, Xu J, Ghildiyal M, Weng Z, Zamore PD. Target RNA-directed trimming and tailing of small silencing RNAs. Science 2010; 328:1534-9; PMID:20558712; http://dx.doi.org/10.1126/science.1187058
   PubMed Web of Science ®Google Scholar
• Baccarini A, Chauhan H, Gardner TJ, Jayaprakash AD, Sachidanandam R, Brown BD. Kinetic analysis reveals the fate of a microRNA following target regulation in mammalian cells. Curr Biol 2011; 21:369-76; PMID:21353554; http://dx.doi.org/10.1016/j.cub.2011.01.067
   PubMed Web of Science ®Google Scholar
• Wang YL, Juranek S, Li HT, Sheng G, Wardle GS, Tuschl T, Patel DJ. Nucleation, propagation and cleavage of target RNAs in Ago silencing complexes. Nature 2009; 461:754-U3; PMID:19812667; http://dx.doi.org/10.1038/nature08434
   PubMed Web of Science ®Google Scholar
• De N, Young L, Lau PW, Meisner NC, Morrissey DV, MacRae IJ. Highly complementary target RNAs promote release of guide RNAs from human Argonaute2. Mol Cell 2013; 50:344-55; PMID:23664376; http://dx.doi.org/10.1016/j.molcel.2013.04.001
   PubMed Web of Science ®Google Scholar
• Flores O, Kennedy EM, Skalsky RL, Cullen BR. Differential RISC association of endogenous human microRNAs predicts their inhibitory potential. Nucleic Acids Res 2014; 42:4629-39; PMID:24464996; http://dx.doi.org/10.1093/nar/gkt1393
   PubMed Web of Science ®Google Scholar
• Stalder L, Heusermann W, Sokol L, Trojer D, Wirz J, Hean J, Fritzsche A, Aeschimann F, Pfanzagl V, Basselet P, et al. The rough endoplasmatic reticulum is a central nucleation site of siRNA-mediated RNA silencing. Embo J 2013; 32:1115-27; PMID:23511973; http://dx.doi.org/10.1038/emboj.2013.52
   PubMed Web of Science ®Google Scholar
• Janas MM, Wang B, Harris AS, Aguiar M, Shaffer JM, Subrahmanyam YV, Behlke MA, Wucherpfennig KW, Gygi SP, Gagnon E, et al. Alternative RISC assembly: binding and repression of microRNA-mRNA duplexes by human Ago proteins. Rna 2012; 18:2041-55; PMID:23019594; http://dx.doi.org/10.1261/rna.035675.112
   PubMed Web of Science ®Google Scholar
• Heimberg AM, Cowper-Sal-lari R, Semon M, Donoghue PC, Peterson KJ. microRNAs reveal the interrelationships of hagfish, lampreys, and gnathostomes and the nature of the ancestral vertebrate. Proc Natl Acad Sci U S A 2010; 107:19379-83; PMID:20959416; http://dx.doi.org/10.1073/pnas.1010350107
   PubMed Web of Science ®Google Scholar
• Sharp PM. Origins of human virus diversity. Cell 2002; 108:305-12; PMID:11853665; http://dx.doi.org/10.1016/S0092-8674(02)00639-6
   PubMedGoogle Scholar
• McGeoch DJ, Dolan A, Ralph AC. Toward a comprehensive phylogeny for mammalian and avian herpesviruses. J Virol 2000; 74:10401-6; PMID:11044084; http://dx.doi.org/10.1128/JVI.74.22.10401-10406.2000
   PubMed Web of Science ®Google Scholar
• Benton MJ, Donoghue PC. Paleontological evidence to date the tree of life. Mol Biol Evol 2007; 24:26-53; PMID:17047029; http://dx.doi.org/10.1093/molbev/msl150
   PubMed Web of Science ®Google Scholar
• Guo YE, Riley KJ, Iwasaki A, Steitz JA. Alternative capture of noncoding RNAs or protein-coding genes by herpesviruses to alter host T cell function. Mol Cell 2014; 54:67-79; PMID:24725595; http://dx.doi.org/10.1016/j.molcel.2014.03.025
   PubMedGoogle Scholar
• Sallam HM, Seiffert ER, Steiper ME, Simons EL. Fossil and molecular evidence constrain scenarios for the early evolutionary and biogeographic history of hystricognathous rodents. Proc Natl Acad Sci U S A 2009; 106:16722-7; PMID:19805363; http://dx.doi.org/10.1073/pnas.0908702106
   PubMed Web of Science ®Google Scholar
• Noraz N, Saha K, Ottones F, Smith S, Taylor N. Constitutive activation of TCR signaling molecules in IL-2-independent Herpesvirus saimiri-transformed T cells. J Immunol 1998; 160:2042-5; PMID:9498738
   PubMed Web of Science ®Google Scholar
• Jia J, Delhon G, Tulman ER, Diel DG, Osorio FA, Wen X, Kutish GF, Rock DL. Novel gammaherpesvirus functions encoded by bovine herpesvirus 6 (bovine lymphotropic virus). J Gen Virol 2014; 95:1790-8; PMID:24836671; http://dx.doi.org/10.1099/vir.0.066951-0
   PubMedGoogle Scholar
• Ouyang P, Rakus K, van Beurden SJ, Westphal AH, Davison AJ, Gatherer D, Vanderplasschen AF. IL-10 encoded by viruses: a remarkable example of independent acquisition of a cellular gene by viruses and its subsequent evolution in the viral genome. J Gen Virol 2014; 95:245-62; PMID:24225498; http://dx.doi.org/10.1099/vir.0.058966-0
   PubMedGoogle Scholar
• Juranic Lisnic V, Babic Cac M, Lisnic B, Trsan T, Mefferd A, Das Mukhopadhyay C, Cook CH, Jonjic S, Trgovcich J. Dual analysis of the murine cytomegalovirus and host cell transcriptomes reveal new aspects of the virus-host cell interface. PLoS Pathog 2013; 9:e1003611; PMID:24086132
   PubMedGoogle Scholar
• Jopling CL, Yi M, Lancaster AM, Lemon SM, Sarnow P. Modulation of hepatitis C virus RNA abundance by a liver-specific microRNA. Science 2005; 309:1577-81; PMID:16141076; http://dx.doi.org/10.1126/science.1113329
   PubMed Web of Science ®Google Scholar
• Trobaugh DW, Gardner CL, Sun C, Haddow AD, Wang E, Chapnik E, Mildner A, Weaver SC, Ryman KD, Klimstra WB. RNA viruses can hijack vertebrate microRNAs to suppress innate immunity. Nature 2014; 506:245-8; PMID:24352241; http://dx.doi.org/10.1038/nature12869
   PubMed Web of Science ®Google Scholar
• Lanford RE, Hildebrandt-Eriksen ES, Petri A, Persson R, Lindow M, Munk ME, Kauppinen S, Ørum H. Therapeutic silencing of microRNA-122 in primates with chronic hepatitis C virus infection. Science 2010; 327:198-201; PMID:19965718; http://dx.doi.org/10.1126/science.1178178
   PubMed Web of Science ®Google Scholar
• Machlin ES, Sarnow P, Sagan SM. Masking the 5′ terminal nucleotides of the hepatitis C virus genome by an unconventional microRNA-target RNA complex. Proc Natl Acad Sci U S A 2011; 108:3193-8; PMID:21220300; http://dx.doi.org/10.1073/pnas.1012464108
   PubMed Web of Science ®Google Scholar
• Jopling CL, Schutz S, Sarnow P. Position-dependent function for a tandem microRNA miR-122-binding site located in the hepatitis C virus RNA genome. Cell Host Microbe 2008; 4:77-85; PMID:18621012; http://dx.doi.org/10.1016/j.chom.2008.05.013
   PubMed Web of Science ®Google Scholar
• Luna JM, Scheel TK, Danino T, Shaw KS, Mele A, Fak JJ, Nishiuchi E, Takacs CN, Catanese MT, de Jong YP, et al. Hepatitis C virus RNA functionally sequesters miR-122. Cell 2015; 160:1099-110; PMID:25768906; http://dx.doi.org/10.1016/j.cell.2015.02.025
   PubMed Web of Science ®Google Scholar
• tenOever BR. RNA viruses and the host microRNA machinery. Nat Rev Microbiol 2013; 11:169-80; PMID:23411862; http://dx.doi.org/10.1038/nrmicro2971
   PubMed Web of Science ®Google Scholar
• Avraham R, Sas-Chen A, Manor O, Steinfeld I, Shalgi R, Tarcic G, Bossel N, Zeisel A, Amit I, Zwang Y, et al. EGF decreases the abundance of microRNAs that restrain oncogenic transcription factors. Sci Signal 2010; 3:ra43; PMID:20516477
   PubMed Web of Science ®Google Scholar
• Rissland OS, Hong SJ, Bartel DP. MicroRNA destabilization enables dynamic regulation of the miR-16 family in response to cell-cycle changes. Mol Cell 2011; 43:993-1004; PMID:21925387; http://dx.doi.org/10.1016/j.molcel.2011.08.021
   PubMed Web of Science ®Google Scholar
• Fabbri M, Paone A, Calore F, Galli R, Gaudio E, Santhanam R, Lovat F, Fadda P, Mao C, Nuovo GJ, et al. MicroRNAs bind to Toll-like receptors to induce prometastatic inflammatory response. Proc Natl Acad Sci U S A 2012; 109:E2110-6; PMID:22753494; http://dx.doi.org/10.1073/pnas.1209414109
   PubMed Web of Science ®Google Scholar
• Eiring AM, Harb JG, Neviani P, Garton C, Oaks JJ, Spizzo R, Liu S, Schwind S, Santhanam R, Hickey CJ, et al. miR-328 functions as an RNA decoy to modulate hnRNP E2 regulation of mRNA translation in leukemic blasts. Cell 2010; 140:652-65; PMID:20211135; http://dx.doi.org/10.1016/j.cell.2010.01.007
   PubMed Web of Science ®Google Scholar
• Chen AK, Sengupta P, Waki K, Van Engelenburg SB, Ochiya T, Ablan SD, Freed EO, Lippincott-Schwartz J. MicroRNA binding to the HIV-1 Gag protein inhibits Gag assembly and virus production. Proc Natl Acad Sci U S A 2014; 111:E2676-83; PMID:24938790; http://dx.doi.org/10.1073/pnas.1408037111
   PubMedGoogle Scholar