Llave C, Kasschau KD, Rector MA, Carrington JC. Endogenous and silencing-associated small RNAs in plants. Plant Cell. 2002;14(7):1605–19.
Article
PubMed
PubMed Central
CAS
Google Scholar
Llave C, Xie Z, Kasschau KD, Carrington JC. Cleavage of Scarecrow-like mRNA targets directed by a class of Arabidopsis miRNA. Science. 2002;297(5589):2053–6.
Article
PubMed
CAS
Google Scholar
Reinhart BJ, Weinstein EG, Rhoades MW, Bartel B, Bartel DP. MicroRNAs in plants. Genes Dev. 2002;16(13):1616–26.
Article
PubMed
PubMed Central
CAS
Google Scholar
Rhoades MW, Reinhart BJ, Lim LP, Burge CB, Bartel B, Bartel DP. Prediction of plant microRNA targets. Cell. 2002;110(4):513–20.
Article
PubMed
CAS
Google Scholar
Arazi T, Talmor-Neiman M, Stav R, Riese M, Huijser P, Baulcombe DC. Cloning and characterization of micro-RNAs from moss. Plant J. 2005;43(6):837–48.
Article
PubMed
CAS
Google Scholar
Lewis BP, Burge CB, Bartel DP. Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell. 2005;120(1):15–20.
Article
PubMed
CAS
Google Scholar
Sunkar R, Girke T, Jain PK, Zhu JK. Cloning and characterization of microRNAs from rice. Plant Cell. 2005;17(5):1397–411.
Article
PubMed
PubMed Central
CAS
Google Scholar
Molnar A, Schwach F, Studholme DJ, Thuenemann EC, Baulcombe DC. miRNAs control gene expression in the single-cell alga Chlamydomonas reinhardtii. Nature. 2007;447(7148):1126–9.
Article
PubMed
CAS
Google Scholar
Zhao T, Li GL, Mi SJ, Li S, Hannon GJ, Wang XJ, et al. A complex system of small RNAs in the unicellular green alga Chlamydomonas reinhardtii. Genes Dev. 2007;21(10):1190–203.
Article
PubMed
PubMed Central
CAS
Google Scholar
Lee RC, Ambros V. An extensive class of small RNAs in Caenorhabditis elegans. Science. 2001;294(5543):862–4.
Article
PubMed
CAS
Google Scholar
Han JJ, Lee Y, Yeom KH, Kim YK, Jin H, Kim VN. The Drosha-DGCR8 complex in primary microRNA processing. Genes Dev. 2004;18(24):3016–27.
Article
PubMed
PubMed Central
CAS
Google Scholar
Denli AM, Tops BB, Plasterk RH, Ketting RF, Hannon GJ. Processing of primary microRNAs by the Microprocessor complex. Nature. 2004;432(7014):231–5.
Article
PubMed
CAS
Google Scholar
Yeom KH, Lee Y, Han JJ, Suh MR, Kim VN. Characterization of DGCR8/Pasha, the essential cofactor for Drosha in primary miRNA processing. Nucleic Acids Res. 2006;34(16):4622–9.
Article
PubMed
PubMed Central
CAS
Google Scholar
Yi R, Qin Y, Macara IG, Cullen BR. Exportin-5 mediates the nuclear export of pre-microRNAs and short hairpin RNAs. Genes Dev. 2003;17(24):3011–6.
Article
PubMed
PubMed Central
CAS
Google Scholar
Lund E, Guttinger S, Calado A, Dahlberg JE, Kutay U. Nuclear export of microRNA precursors. Science. 2004;303(5654):95–8.
Article
PubMed
CAS
Google Scholar
Chendrimada TP, Finn KJ, Ji XJ, Baillat D, Gregory RI, Liebhaber SA, et al. MicroRNA silencing through RISC recruitment of eIF6. Nature. 2007;447(7146):823.
Article
PubMed
CAS
Google Scholar
Wynant N, Santos D, Broeck JV. The evolution of animal Argonautes: evidence for the absence of antiviral AGO Argonautes in vertebrates. Sci Rep. 2017;7:9230.
Article
PubMed
PubMed Central
Google Scholar
Park W, Li J, Song R, Messing J, Chen X. CARPEL FACTORY, a Dicer homolog, and HEN1, a novel protein, act in microRNA metabolism in Arabidopsis thaliana. Curr Biol (CB). 2002;12(17):1484–95.
Article
PubMed
PubMed Central
CAS
Google Scholar
Schauer SE, Jacobsen SE, Meinke DW, Ray A. DICER-LIKE1: blind men and elephants in Arabidopsis development. Trends Plant Sci. 2002;7(11):487–91.
Article
PubMed
CAS
Google Scholar
Han MH, Goud S, Song L, Fedoroff N. The Arabidopsis double-stranded RNA-binding protein HYL1 plays a role in microRNA-mediated gene regulation. Proc Natl Acad Sci USA. 2004;101(4):1093–8.
Article
PubMed
CAS
Google Scholar
Kurihara Y, Watanabe Y. Arabidopsis micro-RNA biogenesis through Dicer-like 1 protein functions. P Natl Acad Sci USA. 2004;101(34):12753–8.
Article
CAS
Google Scholar
Vazquez F, Gasciolli V, Crete P, Vaucheret H. The nuclear dsRNA binding protein HYL1 is required for microRNA accumulation and plant development, but not posttranscriptional transgene silencing. Curr Biol (CB). 2004;14(4):346–51.
Article
PubMed
CAS
Google Scholar
Kurihara Y, Takashi Y, Watanabe Y. The interaction between DCL1 and HYL1 is important for efficient and precise processing of pri-miRNA in plant microRNA biogenesis. RNA. 2006;12(2):206–12.
Article
PubMed
PubMed Central
CAS
Google Scholar
Lobbes D, Rallapalli G, Schmidt DD, Martin C, Clarke J. SERRATE: a new player on the plant microRNA scene. EMBO Rep. 2006;7(10):1052–8.
Article
PubMed
PubMed Central
CAS
Google Scholar
Yang L, Liu Z, Lu F, Dong A, Huang H. SERRATE is a novel nuclear regulator in primary microRNA processing in Arabidopsis. Plant J. 2006;47(6):841–50.
Article
PubMed
CAS
Google Scholar
Eamens AL, Smith NA, Curtin SJ, Wang MB, Waterhouse PM. The Arabidopsis thaliana double-stranded RNA binding protein DRB1 directs guide strand selection from microRNA duplexes. RNA. 2009;15(12):2219–35.
Article
PubMed
PubMed Central
CAS
Google Scholar
Boutet S, Vazquez F, Liu J, Beclin C, Fagard M, Gratias A, et al. Arabidopsis HEN1: a genetic link between endogenous miRNA controlling development and siRNA controlling transgene silencing and virus resistance. Curr Biol (CB). 2003;13(10):843–8.
Article
PubMed
PubMed Central
CAS
Google Scholar
Li J, Yang Z, Yu B, Liu J, Chen X. Methylation protects miRNAs and siRNAs from a 3′-end uridylation activity in Arabidopsis. Curr Biol (CB). 2005;15(16):1501–7.
Article
PubMed
PubMed Central
CAS
Google Scholar
Yu B, Yang Z, Li J, Minakhina S, Yang M, Padgett RW, et al. Methylation as a crucial step in plant microRNA biogenesis. Science. 2005;307(5711):932–5.
Article
PubMed
PubMed Central
CAS
Google Scholar
Ren G, Xie M, Zhang S, Vinovskis C, Chen X, Yu B. Methylation protects microRNAs from an AGO1-associated activity that uridylates 5′ RNA fragments generated by AGO1 cleavage. Proc Natl Acad Sci USA. 2014;111(17):6365–70.
Article
PubMed
CAS
Google Scholar
Zhao Y, Chen X. Noncoding RNAs and DNA methylation in plants. Natl Sci Rev. 2014;1(2):219–29.
Article
PubMed
PubMed Central
CAS
Google Scholar
Baranauske S, Mickute M, Plotnikova A, Finke A, Venclovas C, Klimasauskas S, et al. Functional mapping of the plant small RNA methyltransferase: hEN1 physically interacts with HYL1 and DICER-LIKE 1 proteins. Nucleic Acids Res. 2015;43(5):2802–12.
Article
PubMed
PubMed Central
CAS
Google Scholar
Valli AA, Santos BACM, Hnatova S, Bassett AR, Molnar A, Chung BY, et al. Most microRNAs in the single-cell alga Chlamydomonas reinhardtii are produced by Dicer-like 3-mediated cleavage of introns and untranslated regions of coding RNAs. Genome Res. 2016;26(4):519–29.
Article
PubMed
PubMed Central
CAS
Google Scholar
Yamasaki T, Kim EJ, Cerutti H, Ohama T. Argonaute3 is a key player in miRNA-mediated target cleavage and translational repression in Chlamydomonas. Plant J. 2016;85(2):258–68.
Article
PubMed
CAS
Google Scholar
Yamasaki T, Cerutti H. Cooperative processing of primary miRNAs by DUS16 and DCL3 in the unicellular green alga Chlamydomonas reinhardtii. Commun Integr Biol. 2017;10(1):e1280208.
Article
PubMed
PubMed Central
CAS
Google Scholar
Vaucheret H. Plant argonautes. Trends Plant Sci. 2008;13(7):350–8.
Article
PubMed
CAS
Google Scholar
Mallory A, Vaucheret H. Form, function, and regulation of ARGONAUTE proteins. Plant Cell. 2010;22(12):3879–89.
Article
PubMed
PubMed Central
CAS
Google Scholar
Zhang Z, Hu F, Sung MW, Shu C, Castillo-Gonzalez C, Koiwa H, et al. RISC-interacting clearing 3′-5′ exoribonucleases (RICEs) degrade uridylated cleavage fragments to maintain functional RISC in Arabidopsis thaliana. eLife. 2017;6:e24466.
Article
PubMed
PubMed Central
Google Scholar
Liu Q, Wang F, Axtell MJ. Analysis of complementarity requirements for plant microRNA targeting using a Nicotiana benthamiana quantitative transient assay. Plant Cell. 2014;26(2):741–53.
Article
PubMed
PubMed Central
CAS
Google Scholar
Chekulaeva M, Filipowicz W. Mechanisms of miRNA-mediated post-transcriptional regulation in animal cells. Curr Opin Cell Biol. 2009;21(3):452–60.
Article
PubMed
CAS
Google Scholar
Moran Y, Agron M, Praher D, Technau U. The evolutionary origin of plant and animal microRNAs. Nat Ecol Evol. 2017;1(3):27.
Article
PubMed
Google Scholar
Yamasaki T, Voshall A, Kim EJ, Moriyama E, Cerutti H, Ohama T. Complementarity to an miRNA seed region is sufficient to induce moderate repression of a target transcript in the unicellular green alga Chlamydomonas reinhardtii. Plant J. 2013;76(6):1045–56.
Article
PubMed
CAS
Google Scholar
Molnar A, Bassett A, Thuenemann E, Schwach F, Karkare S, Ossowski S, et al. Highly specific gene silencing by artificial microRNAs in the unicellular alga Chlamydomonas reinhardtii. Plant J. 2009;58(1):165–74.
Article
PubMed
CAS
Google Scholar
Zhao T, Wang W, Bai X, Qi YJ. Gene silencing by artificial microRNAs in Chlamydomonas. Plant J. 2009;58(1):157–64.
Article
PubMed
CAS
Google Scholar
Schmollinger S, Strenkert D, Schroda M. An inducible artificial microRNA system for Chlamydomonas reinhardtii confirms a key role for heat shock factor 1 in regulating thermotolerance. Curr Genet. 2010;56(4):383–9.
Article
PubMed
CAS
Google Scholar
Burgess SJ, Tredwell G, Molnar A, Bundy JG, Nixon PJ. Artificial microRNA-mediated knockdown of pyruvate formate lyase (PFL1) provides evidence for an active 3-hydroxybutyrate production pathway in the green alga Chlamydomonas reinhardtii. J Biotechnol. 2012;162(1):57–66.
Article
PubMed
CAS
Google Scholar
Hu J, Deng X, Shao N, Wang G, Huang K. Rapid construction and screening of artificial microRNA systems in Chlamydomonas reinhardtii. Plant J. 2014;79(6):1052–64.
Article
PubMed
CAS
Google Scholar
Li H, Zhang L, Shu L, Zhuang X, Liu Y, Chen J, et al. Sustainable photosynthetic H2-production mediated by artificial miRNA silencing of OEE2 gene in green alga Chlamydomonas reinhardtii. Int J Hydrogen Energy. 2015;40(16):5609–16.
Article
CAS
Google Scholar
Tang GL, Yan J, Gu YY, Qiao MM, Fan RW, Mao YP, et al. Construction of short tandem target mimic (STTM) to block the functions of plant and animal microRNAs. Methods. 2012;58(2):118–25.
Article
PubMed
PubMed Central
CAS
Google Scholar
Yan J, Gu YY, Jia XY, Kang WJ, Pan SJ, Tang XQ, et al. Effective small RNA destruction by the expression of a short tandem target mimic in Arabidopsis. Plant Cell. 2012;24(2):415–27.
Article
PubMed
PubMed Central
CAS
Google Scholar
Tang GL, Tang XQ. Short tandem target mimic: a long journey to the engineered molecular landmine for selective destruction/blockage of MicroRNAs in plants and animals. J Genet Genomics. 2013;40(6):291–6.
Article
PubMed
CAS
Google Scholar
Reichel M, Li YJ, Li JY, Millar AA. Inhibiting plant microRNA activity: molecular SPONGEs, target MIMICs and STTMs all display variable efficacies against target microRNAs. Plant Biotechnol J. 2015;13(7):915–26.
Article
PubMed
CAS
Google Scholar
Zhang H, Zhang JS, Yan J, Gou F, Mao YF, Tang GL, et al. Short tandem target mimic rice lines uncover functions of miRNAs in regulating important agronomic traits. P Natl Acad Sci USA. 2017;114(20):5277–82.
Article
CAS
Google Scholar
Bohmert K, Camus I, Bellini C, Bouchez D, Caboche M, Benning C. AGO1 defines a novel locus of Arabidopsis controlling leaf development. EMBO J. 1998;17(1):170–80.
Article
PubMed
PubMed Central
CAS
Google Scholar
Vaucheret H, Vazquez F, Crete P, Bartel DP. The action of ARGONAUTE1 in the miRNA pathway and its regulation by the miRNA pathway are crucial for plant development. Genes Dev. 2004;18(10):1187–97.
Article
PubMed
PubMed Central
CAS
Google Scholar
Zhang XM, Zhao HW, Gao S, Wang WC, Katiyar-Agarwal S, Huang HD, et al. Arabidopsis Argonaute 2 regulates innate immunity via miRNA393*-mediated silencing of a golgi-localized SNARE gene, MEMB12. Mol Cell. 2011;42(3):356–66.
Article
PubMed
PubMed Central
CAS
Google Scholar
Qi YJ, He XY, Wang XJ, Kohany O, Jurka J, Hannon GJ. Distinct catalytic and non-catalytic roles of ARGONAUTE4 in RNA-directed DNA methylation. Nature. 2006;443(7114):1008–12.
Article
PubMed
Google Scholar
Hunter C, Wu G, Sun H, Poethig RS. The Arabidopsis heterochronic gene ZIPPY is an ARGONAUTE family member. Dev Biol. 2003;259(2):521–2.
Google Scholar
Ceci M, Gaviraghi C, Gorrini C, Sala LA, Offenhauser N, Marchisio PC, et al. Release of eIF6 (p27BBP) from the 60S subunit allows 80S ribosome assembly. Nature. 2003;426(6966):579–84.
Article
PubMed
CAS
Google Scholar
van den Berg A, Mols J, Han JH. RISC-target interaction: cleavage and translational suppression. BBA-Gene Regul Mech. 2008;1779(11):668–77.
Google Scholar
Hutvagner G, Zamore PD. A microRNA in a multiple-turnover RNAi enzyme complex. Science. 2002;297(5589):2056–60.
Article
PubMed
CAS
Google Scholar
Mourelatos Z, Dostie J, Paushkin S, Sharma A, Charroux B, Abel L, et al. miRNPs: a novel class of ribonucleoproteins containing numerous microRNAs. Genes Dev. 2002;16(6):720–8.
Article
PubMed
PubMed Central
CAS
Google Scholar
Zeng Y, Yi R, Cullen BR. MicroRNAs and small interfering RNAs can inhibit mRNA expression by similar mechanisms. P Natl Acad Sci USA. 2003;100(17):9779–84.
Article
CAS
Google Scholar
Lee RC, Feinbaum RL, Ambros V. The C. elegans heterochronic gene lin-4 encodes small rnas with antisense complementarity To lin-14. Cell. 1993;75(5):843–54.
Article
PubMed
CAS
Google Scholar
Wightman B, Ha I, Ruvkun G. Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern-formation in C. elegans. Cell. 1993;75(5):855–62.
Article
PubMed
CAS
Google Scholar
Reinhart BJ, Slack FJ, Basson M, Pasquinelli AE, Bettinger JC, Rougvie AE, et al. The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans. Nature. 2000;403(6772):901–6.
Article
PubMed
CAS
Google Scholar
Hamilton AJ, Baulcombe DC. A species of small antisense RNA in posttranscriptional gene silencing in plants. Science. 1999;286(5441):950–2.
Article
PubMed
CAS
Google Scholar
Bauman Y, Nachmani D, Vitenshtein A, Tsukerman P, Drayman N, Stern-Ginossar N, et al. An identical miRNA of the human JC and BK polyoma viruses targets the stress-induced ligand ULBP3 to escape immune elimination. Cell Host Microbe. 2011;9(2):93–102.
Article
PubMed
CAS
Google Scholar
Lagos-Quintana M, Rauhut R, Lendeckel W, Tuschl T. Identification of novel genes coding for small expressed RNAs. Science. 2001;294(5543):853–8.
Article
PubMed
CAS
Google Scholar
Lau NC, Lim LP, Weinstein EG, Bartel DP. An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans. Science. 2001;294(5543):858–62.
Article
PubMed
CAS
Google Scholar
Longfei Shu ZH. Small silencing RNAs in Chlamydomonas reinhardtii. Minerva Biotecnol. 2010;22(1):9.
Google Scholar
Shu LF, Hu ZL. Characterization and differential expression of microRNAs elicited by sulfur deprivation in Chlamydomonas reinhardtii. BMC Genomics. 2012;13:108.
Article
PubMed
PubMed Central
CAS
Google Scholar
Li H, Wang YT, Chen MR, Xiao P, Hu CX, Zeng ZY, et al. Genome-wide long non-coding RNA screening, identification and characterization in a model microorganism Chlamydomonas reinhardtii. Sci Rep. 2016;6:34109.
Article
PubMed
PubMed Central
CAS
Google Scholar
Voshall A, Kim EJ, Ma X, Moriyama EN, Cerutti H. Identification of AGO3-associated miRNAs and computational prediction of their targets in the green alga Chlamydomonas reinhardtii. Genetics. 2015;200(1):105–21.
Article
PubMed
PubMed Central
CAS
Google Scholar
Wilson MD, Wang D, Wagner R, Breyssens H, Gertsenstein M, Lobe C, et al. ARS2 is a conserved eukaryotic gene essential for early mammalian development. Mol Cell Biol. 2008;28(5):1503–14.
Article
PubMed
CAS
Google Scholar
Sabin LR, Zhou R, Gruber JJ, Lukinova N, Bambina S, Berman A, et al. Ars2 regulates both miRNA- and siRNA-dependent silencing and suppresses RNA virus infection in Drosophila. Cell. 2009;138(2):340–51.
Article
PubMed
PubMed Central
CAS
Google Scholar
Du TT, Zamore PD. microPrimer: the biogenesis and function of microRNA. Development. 2005;132(21):4645–52.
Article
PubMed
CAS
Google Scholar
Du T, Zamore PD. Beginning to understand microRNA function. Cell Res. 2007;17(8):661–3.
Article
PubMed
CAS
Google Scholar
Bollman KM, Aukerman MJ, Park MY, Hunter C, Berardini TZ, Poethig RS. HASTY, the Arabidopsis ortholog of exportin 5/MSN5, regulates phase change and morphogenesis. Development. 2003;130(8):1493–504.
Article
PubMed
CAS
Google Scholar
Park MY, Wu G, Gonzalez-Sulser A, Vaucheret H, Poethig RS. Nuclear processing and export of microRNAs in Arabidopsis. Proc Natl Acad Sci USA. 2005;102(10):3691–6.
Article
PubMed
CAS
Google Scholar
Grishok A, Pasquinelli AE, Conte D, Li N, Parrish S, Ha I, et al. Genes and mechanisms related to RNA interference regulate expression of the small temporal RNAs that control C. elegans developmental timing. Cell. 2001;106(1):23–34.
Article
PubMed
CAS
Google Scholar
Ketting RF, Fischer SE, Bernstein E, Sijen T, Hannon GJ, Plasterk RH. Dicer functions in RNA interference and in synthesis of small RNA involved in developmental timing in C. elegans. Genes Dev. 2001;15(20):2654–9.
Article
PubMed
PubMed Central
CAS
Google Scholar
Axtell MJ, Westholm JO, Lai EC. Vive la difference: biogenesis and evolution of microRNAs in plants and animals. Genome Biol. 2011;12(4):221.
Article
PubMed
PubMed Central
CAS
Google Scholar
Cui J, You CJ, Chen XM. The evolution of microRNAs in plants. Curr Opin Plant Biol. 2017;35:61–7.
Article
PubMed
CAS
Google Scholar
Dong Z, Han MH, Fedoroff N. The RNA-binding proteins HYL1 and SE promote accurate in vitro processing of pri-miRNA by DCL1. Proc Natl Acad Sci USA. 2008;105(29):9970–5.
Article
PubMed
Google Scholar
Pouch-Pelissier MN, Pelissier T, Elmayan T, Vaucheret H, Boko D, Jantsch MF, et al. SINE RNA induces severe developmental defects in Arabidopsis thaliana and interacts with HYL1 (DRB1), a key member of the DCL1 complex. PLoS Genet. 2008;4(6):e1000096.
Article
PubMed
PubMed Central
CAS
Google Scholar
Eamens AL, Kim KW, Curtin SJ, Waterhouse PM. DRB2 is required for microRNA biogenesis in Arabidopsis thaliana. PLoS ONE. 2012;7(4):e35933.
Article
PubMed
PubMed Central
CAS
Google Scholar
Reis RS, Hart-Smith G, Eamens AL, Wilkins MR, Waterhouse PM. Gene regulation by translational inhibition is determined by Dicer partnering proteins. Nat Plants. 2015;1:14027.
Article
PubMed
CAS
Google Scholar
Reis RS, Hart-Smith G, Eamens AL, Wilkins MR, Waterhouse PM. MicroRNA regulatory mechanisms play different roles in Arabidopsis. J Proteome Res. 2015;14(11):4743–51.
Article
PubMed
CAS
Google Scholar
Eamens AL, Wook Kim K, Waterhouse PM. DRB2, DRB3 and DRB5 function in a non-canonical microRNA pathway in Arabidopsis thaliana. Plant Signal Behav. 2012;7(10):1224–9.
Article
PubMed
PubMed Central
CAS
Google Scholar
Yamasaki T, Onishi M, Kim EJ, Cerutti H, Ohama T. RNA-binding protein DUS16 plays an essential role in primary miRNA processing in the unicellular alga Chlamydomonas reinhardtii. Proc Natl Acad Sci USA. 2016;113(38):10720–5.
Article
PubMed
CAS
Google Scholar
Cuperus JT, Fahlgren N, Carrington JC. Evolution and functional diversification of MIRNA genes. Plant Cell. 2011;23(2):431–42.
Article
PubMed
PubMed Central
CAS
Google Scholar
Nozawa M, Miura S, Nei M. Origins and evolution of microRNA genes in plant species. Genome Biol Evol. 2012;4(3):230–9.
Article
PubMed
PubMed Central
CAS
Google Scholar
Tarver JE, Donoghue PCJ, Peterson KJ. Do miRNAs have a deep evolutionary history? Bioessays. 2012;34(10):857–66.
Article
PubMed
CAS
Google Scholar
Li JR, Wu Y, Qi YJ. microRNAs in a multicellular green alga Volvox carteri. Sci China Life Sci. 2014;57(1):36–45.
Article
PubMed
CAS
Google Scholar
Alaba S, Piszczalka P, Pietrykowska H, Pacak AM, Sierocka I, Nuc PW, et al. The liverwort Pellia endiviifolia shares microtranscriptomic traits that are common to green algae and land plants. New Phytol. 2015;206(1):352–67.
Article
PubMed
CAS
Google Scholar
Kim YK, Heo I, Kim VN. Modifications of small RNAs and their associated proteins. Cell. 2010;143(5):703–9.
Article
PubMed
CAS
Google Scholar
Huang Y, Ji LJ, Huang QC, Vassylyev DG, Chen XM, Ma JB. Structural insights into mechanisms of the small RNA methyltransferase HEN1. Nature. 2009;461(7265):823.
Article
PubMed
PubMed Central
CAS
Google Scholar
Ameres SL, Horwich MD, Hung JH, Xu J, Ghildiyal M, Weng ZP, et al. Target RNA-directed trimming and tailing of small silencing RNAs. Science. 2010;328(5985):1534–9.
Article
PubMed
PubMed Central
CAS
Google Scholar
Horwich MD, Li C, Matranga C, Vagin V, Farley G, Wang P, et al. The Drosophila RNA methyltransferase, DmHen1, modifies germline piRNAs and single-stranded siRNAs in RISC. Curr Biol (CB). 2007;17(14):1265–72.
Article
PubMed
CAS
Google Scholar
Kamminga LM, Luteijn MJ, den Broeder MJ, Redl S, Kaaij LJ, Roovers EF, et al. Hen1 is required for oocyte development and piRNA stability in zebrafish. EMBO J. 2010;29(21):3688–700.
Article
PubMed
PubMed Central
CAS
Google Scholar
Kirino Y, Mourelatos Z. Mouse Piwi-interacting RNAs are 2’-O-methylated at their 3’ termini. Nat Struct Mol Biol. 2007;14(4):347–8.
Article
PubMed
CAS
Google Scholar
Li JJ, Yang ZY, Yu B, Liu J, Chen XM. Methylation protects miRNAs and siRNAs from a 3 ‘-end uridylation activity in Arabildopsis. Curr Biol. 2005;15(16):1501–7.
Article
PubMed
PubMed Central
CAS
Google Scholar
Saito K, Sakaguchi Y, Suzuki T, Suzuki T, Siomi H, Siomi MC. Pimet, the Drosophila homolog of HEN1, mediates 2’-O-methylation of PIWI-interacting RNAs at their 3’ ends. Genes Dev. 2007;21(13):1603–8.
Article
PubMed
PubMed Central
CAS
Google Scholar
Chatterjee S, Grosshans H. Active turnover modulates mature microRNA activity in Caenorhabditis elegans. Nature. 2009;461(7263):546.
Article
PubMed
CAS
Google Scholar
Kamminga LM, van Wolfswinkel JC, Luteijn MJ, Kaaij LJT, Bagijn MP, Sapetschnig A, et al. Differential impact of the HEN1 homolog HENN-1 on 21U and 26G RNAs in the germline of Caenorhabditis elegans. PLoS Genet. 2012;8(7):1002702.
Article
CAS
Google Scholar
Yu Y, Ji L, Le BH, Zhai J, Chen J, Luscher E, et al. ARGONAUTE10 promotes the degradation of miR165/6 through the SDN1 and SDN2 exonucleases in Arabidopsis. PLoS Biol. 2017;15(2):e2001272.
Article
PubMed
PubMed Central
CAS
Google Scholar
Ren G, Chen X, Yu B. Uridylation of miRNAs by hen1 suppressor1 in Arabidopsis. Curr Biol (CB). 2012;22(8):695–700.
Article
PubMed
PubMed Central
CAS
Google Scholar
Zhao Y, Yu Y, Zhai J, Ramachandran V, Dinh TT, Meyers BC, et al. The Arabidopsis nucleotidyl transferase HESO1 uridylates unmethylated small RNAs to trigger their degradation. Curr Biol (CB). 2012;22(8):689–94.
Article
PubMed
PubMed Central
CAS
Google Scholar
Tu B, Liu L, Xu C, Zhai JX, Li SB, Lopez MA, et al. Distinct and cooperative activities of HESO1 and URT1 nucleotidyl transferases in MicroRNA turnover in Arabidopsis. PLoS Genet. 2015;11(4):e1005119.
Article
PubMed
PubMed Central
CAS
Google Scholar
Wang XY, Zhang SX, Dou YC, Zhang C, Chen XM, Yu B, et al. Synergistic and independent actions of multiple terminal nucleotidyl transferases in the 3’ tailing of small RNAs in Arabidopsis. PLoS Genet. 2015;11(4):e1005091.
Article
PubMed
PubMed Central
CAS
Google Scholar
Ramachandran V, Chen XM. Degradation of microRNAs by a family of exoribonucleases in Arabidopsis. Science. 2008;321(5895):1490–2.
Article
PubMed
PubMed Central
CAS
Google Scholar
Hagan JP, Piskounova E, Gregory RI. Lin28 recruits the TUTase Zcchc11 to inhibit let-7 maturation in mouse embryonic stem cells. Nat Struct Mol Biol. 2009;16(10):1021.
Article
PubMed
PubMed Central
CAS
Google Scholar
Heo I, Joo C, Kim YK, Ha M, Yoon MJ, Cho J, et al. TUT4 in concert with Lin28 suppresses microRNA biogenesis through Pre-MicroRNA uridylation. Cell. 2009;138(4):696–708.
Article
PubMed
CAS
Google Scholar
Jones MR, Quinton LJ, Blahna MT, Neilson JR, Fu SN, Ivanov AR, et al. Zcchc11-dependent uridylation of microRNA directs cytokine expression. Nat Cell Biol. 2009;11(9):1157.
Article
PubMed
PubMed Central
CAS
Google Scholar
Lehrbach NJ, Armisen J, Lightfoot HL, Murfitt KJ, Bugaut A, Balasubramanian S, et al. LIN-28 and the poly(U) polymerase PUP-2 regulate let-7 microRNA processing in Caenorhabditis elegans. Nat Struct Mol Biol. 2009;16(10):1016.
Article
PubMed
PubMed Central
CAS
Google Scholar
Ibrahim F, Rohr J, Jeong WJ, Hesson J, Cerutti H. Untemplated oligoadenylation promotes degradation of RISC-cleaved transcripts. Science. 2006;314(5807):1893.
Article
PubMed
CAS
Google Scholar
Ibrahim F, Rymarquis LA, Kim EJ, Becker J, Balassa E, Green PJ, et al. Uridylation of mature miRNAs and siRNAs by the MUT68 nucleotidyltransferase promotes their degradation in Chlamydomonas. P Natl Acad Sci USA. 2010;107(8):3906–11.
Article
Google Scholar
Cerutti H, Ibrahim F. Turnover of mature miRNAs and siRNAs in plants and algae. Adv Exp Med Biol. 2011;700:124–39.
Article
PubMed
Google Scholar
Bartel DP. MicroRNAs: target recognition and regulatory functions. Cell. 2009;136(2):215–33.
Article
PubMed
PubMed Central
CAS
Google Scholar
Voinnet O. Origin, biogenesis, and activity of plant microRNAs. Cell. 2009;136(4):669–87.
Article
PubMed
CAS
Google Scholar
Schwab R, Palatnik JF, Riester M, Schommer C, Schmid M, Weigel D. Specific effects of microRNAs on the plant transcriptome. Dev Cell. 2005;8(4):517–27.
Article
PubMed
CAS
Google Scholar
Baek D, Villen J, Shin C, Camargo FD, Gygi SP, Bartel DP. The impact of microRNAs on protein output. Nature. 2008;455(7209):64–71.
Article
PubMed
PubMed Central
CAS
Google Scholar
Filipowicz W, Bhattacharyya SN, Sonenberg N. Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight? Nat Rev Genet. 2008;9:102–14.
Article
PubMed
CAS
Google Scholar
Selbach M, Schwanhausser B, Thierfelder N, Fang Z, Khanin R, Rajewsky N. Widespread changes in protein synthesis induced by microRNAs. Nature. 2008;455(7209):58–63.
Article
PubMed
CAS
Google Scholar
Brodersen P, Sakvarelidze-Achard L, Bruun-Rasmussen M, Dunoyer P, Yamamoto YY, Sieburth L, et al. Widespread translational inhibition by plant miRNAs and siRNAs. Science. 2008;320(5880):1185–90.
Article
PubMed
CAS
Google Scholar
Iwakawa H, Tomari Y. Molecular insights into microRNA-mediated translational repression in plants. Mol Cell. 2013;52(4):591–601.
Article
PubMed
CAS
Google Scholar
Eulalio A, Tritschler F, Izaurralde E. The GW182 protein family in animal cells: new insights into domains required for miRNA-mediated gene silencing. RNA. 2009;15(8):1433–42.
Article
PubMed
PubMed Central
CAS
Google Scholar
Yang L, Wu G, Poethig RS. Mutations in the GW-repeat protein SUO reveal a developmental function for microRNA-mediated translational repression in Arabidopsis. P Natl Acad Sci USA. 2012;109(1):315–20.
Article
Google Scholar
Tang G, Reinhart BJ, Bartel DP, Zamore PD. A biochemical framework for RNA silencing in plants. Genes Dev. 2003;17(1):49–63.
Article
PubMed
PubMed Central
CAS
Google Scholar
Chung BYW, Deery MJ, Groen AJ, Howard J, Baulcombe DC. Endogenous miRNA in the green alga Chlamydomonas regulates gene expression through CDS-targeting. Nat Plants. 2017;3(10):787–94.
Article
PubMed
PubMed Central
CAS
Google Scholar
Ma XR, Kim EJ, Kook I, Ma FR, Voshall A, Moriyama E, et al. Small interfering RNA-mediated translation repression alters ribosome sensitivity to inhibition by cycloheximide in Chlamydomonas reinhardtii. Plant Cell. 2013;25(3):985–98.
Article
PubMed
PubMed Central
CAS
Google Scholar
Wang YT, Jiang XQ, Hu CX, Sun T, Zeng ZY, Cai XQ, et al. Optogenetic regulation of artificial microRNA improves H-2 production in green alga Chlamydomonas reinhardti. Biotechnol Biofuels. 2017;10:257.
Article
PubMed
PubMed Central
Google Scholar
Li H, Liu YM, Wang YT, Chen MR, Zhuang XS, Wang CG, et al. Improved photobio-H2 production regulated by artificial miRNA targeting psbA in green microalga Chlamydomonas reinhardtii. Biotechnol Biofuels. 2018;11:36.
Article
PubMed
PubMed Central
Google Scholar
Ebert MS, Neilson JR, Sharp PA. MicroRNA sponges: competitive inhibitors of small RNAs in mammalian cells. Nat Methods. 2007;4(9):721–6.
Article
PubMed
CAS
Google Scholar
Franco-Zorrilla JM, Valli A, Todesco M, Mateos I, Puga MI, Rubio-Somoza I, et al. Target mimicry provides a new mechanism for regulation of microRNA activity. Nat Genet. 2007;39(8):1033–7.
Article
PubMed
CAS
Google Scholar
Gu ZH, Huang CJ, Li FF, Zhou XP. A versatile system for functional analysis of genes and microRNAs in cotton. Plant Biotechnol J. 2014;12(5):638–49.
Article
PubMed
CAS
Google Scholar
Wang YT, Zhuang XS, Chen MR, Zeng ZY, Cai XQ, Li H, et al. An endogenous microRNA (miRNA1166.1) can regulate photobio-H2 production in eukaryotic green alga Chlamydomonas reinhardtii. Biotechnol Biofuels. 2018;11:126.
Article
PubMed
PubMed Central
Google Scholar
Wang CG, Chen X, Li H, Wang JX, Hu ZL. Artificial miRNA inhibition of phosphoenolpyruvate carboxylase increases fatty acid production in a green microalga Chlamydomonas reinhardtii. Biotechnol Biofuels. 2017;10:91.
Article
PubMed
PubMed Central
CAS
Google Scholar
Gao CF, Zhai Y, Ding Y, Wu QY. Application of sweet sorghum for biodiesel production by heterotrophic microalga Chlorella protothecoides. Appl Energ. 2010;87(3):756–61.
Article
CAS
Google Scholar
Ng IS, Tan SI, Kao PH, Chang YK, Chang JS. Recent developments on genetic engineering of microalgae for biofuels and bio-based chemicals. Biotechnol J. 2017;12(10):1600644.
Article
CAS
Google Scholar
Kong F, Romero IT, Warakanont J, Li-Beisson Y. Lipid catabolism in microalgae. New Phytol. 2018;218(4):1340–8.
Article
PubMed
CAS
Google Scholar
Liang MH, Zhu J, Jiang JG. High-value bioproducts from microalgae: strategies and progress. Crit Rev Food Sci Nutr. 2018;1–53.
Huang AY, He LW, Wang GC. Identification and characterization of microRNAs from Phaeodactylum tricornutum by high-throughput sequencing and bioinformatics analysis. BMC Genomics. 2011;12:337.
Article
PubMed
PubMed Central
CAS
Google Scholar
Gao F, Nan FR, Feng J, Lv JP, Liu Q, Xie SL. Identification of conserved and novel microRNAs in Porphyridium purpureum via deep sequencing and bioinformatics. BMC Genomics. 2016;17:612.
Article
PubMed
PubMed Central
CAS
Google Scholar
Cock JM, Liu FL, Duan DL, Bourdareau S, Lipinska AP, Coelho SM, et al. Rapid evolution of microRNA loci in the brown algae. Genome Biol Evol. 2017;9(3):740–9.
Article
PubMed
PubMed Central
CAS
Google Scholar