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Small RNAs, including microRNAs (miRNAs) and short interferingRNAs (siRNAs), are key components of an evolutionarily conservedsystem of RNA-based gene regulation in eukaryotes. They areinvolved in many molecular interactions, including defense againstviruses and regulation of gene expression during development.miRNAs interfere with expression of messenger RNAs encodingfactors that control developmental timing, stem cell maintenance,and other developmental and physiological processes in plantsand animals. miRNAs are negative regulators that function asspecificity determinants, or guides, within complexes that inhibitprotein synthesis (animals) or promote degradation (plants)of mRNA targets.
1 Center for Gene Research and Biotechnology, and Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331, USA. 2 Department of Genetics, Dartmouth Medical School, Hanover, NH 03755, USA.
Note added in proof. Several papers describing developmentallyrelevant miRNA targets were published after this review wascompleted (3840).
* To whom correspondence should be addressed. E-mail: carrington{at}orst.edu
Inhibition of 3' modification of small RNAs in virus-infected plants require spatial and temporal co-expression of small RNAs and viral silencing-suppressor proteins.
R. Lozsa, T. Csorba, L. Lakatos, and J. Burgyan (2008)
Nucleic Acids Res.
36, 4099-4107
|Abstract »|Full Text »|PDF »
Microarray-based analysis of stress-regulated microRNAs in Arabidopsis thaliana.
H.-H. Liu, X. Tian, Y.-J. Li, C.-A. Wu, and C.-C. Zheng (2008)
RNA
14, 836-843
|Abstract »|Full Text »|PDF »
MicroRNA-26a Targets the Histone Methyltransferase Enhancer of Zeste homolog 2 during Myogenesis.
Sequence Variation of MicroRNAs and Their Binding Sites in Arabidopsis.
I. M. Ehrenreich and M. D. Purugganan (2008)
Plant Physiology
146, 1974-1982
|Abstract »|Full Text »|PDF »
Characterization of Hypovirus-Derived Small RNAs Generated in the Chestnut Blight Fungus by an Inducible DCL-2-Dependent Pathway.
X. Zhang, G. C. Segers, Q. Sun, F. Deng, and D. L. Nuss (2008)
J. Virol.
82, 2613-2619
|Abstract »|Full Text »|PDF »
A GATA-1-regulated microRNA locus essential for erythropoiesis.
L. C. Dore, J. D. Amigo, C. O. dos Santos, Z. Zhang, X. Gai, J. W. Tobias, D. Yu, A. M. Klein, C. Dorman, W. Wu, et al. (2008)
PNAS
105, 3333-3338
|Abstract »|Full Text »|PDF »
MicroRNA-373 induces expression of genes with complementary promoter sequences.
R. F. Place, L.-C. Li, D. Pookot, E. J. Noonan, and R. Dahiya (2008)
PNAS
105, 1608-1613
|Abstract »|Full Text »|PDF »
Concise Review: MicroRNA Expression in Multipotent Mesenchymal Stromal Cells.
Xenopus microRNA genes are predominantly located within introns and are differentially expressed in adult frog tissues via post-transcriptional regulation.
Arabidopsis FIERY1, XRN2, and XRN3 Are Endogenous RNA Silencing Suppressors.
I. Gy, V. Gasciolli, D. Lauressergues, J.-B. Morel, J. Gombert, F. Proux, C. Proux, H. Vaucheret, and A. C. Mallory (2007)
PLANT CELL
19, 3451-3461
|Abstract »|Full Text »|PDF »
Human TRIM71 and Its Nematode Homologue Are Targets of let-7 MicroRNA and Its Zebrafish Orthologue Is Essential for Development.
Y.-C. Lin, L.-C. Hsieh, M.-W. Kuo, J. Yu, H.-H. Kuo, W.-L. Lo, R.-J. Lin, A. L. Yu, and W.-H. Li (2007)
Mol. Biol. Evol.
24, 2525-2534
|Abstract »|Full Text »|PDF »
Evidence that RNA silencing functions as an antiviral defense mechanism in fungi.
G. C. Segers, X. Zhang, F. Deng, Q. Sun, and D. L. Nuss (2007)
PNAS
104, 12902-12906
|Abstract »|Full Text »|PDF »
MicroRNA-124a Regulates Foxa2 Expression and Intracellular Signaling in Pancreatic beta-Cell Lines.
N. Baroukh, M. A. Ravier, M. K. Loder, E. V. Hill, A. Bounacer, R. Scharfmann, G. A. Rutter, and E. Van Obberghen (2007)
J. Biol. Chem.
282, 19575-19588
|Abstract »|Full Text »|PDF »
The NS3 protein of Rice hoja blanca tenuivirus suppresses RNA silencing in plant and insect hosts by efficiently binding both siRNAs and miRNAs.
H. Hemmes, L. Lakatos, R. Goldbach, J. Burgyan, and M. Prins (2007)
RNA
13, 1079-1089
|Abstract »|Full Text »|PDF »
A complex system of small RNAs in the unicellular green alga Chlamydomonas reinhardtii.
T. Zhao, G. Li, S. Mi, S. Li, G. J. Hannon, X.-J. Wang, and Y. Qi (2007)
Genes & Dev.
21, 1190-1203
|Abstract »|Full Text »|PDF »
Components of the Arabidopsis mRNA Decapping Complex Are Required for Early Seedling Development.
D. C. Goeres, J. M. Van Norman, W. Zhang, N. A. Fauver, M. L. Spencer, and L. E. Sieburth (2007)
PLANT CELL
19, 1549-1564
|Abstract »|Full Text »|PDF »
Review of the Application of RNA Interference Technology in the Pharmaceutical Industry.
A Structured Viroid RNA Serves as a Substrate for Dicer-Like Cleavage To Produce Biologically Active Small RNAs but Is Resistant to RNA-Induced Silencing Complex-Mediated Degradation.
A. Itaya, X. Zhong, R. Bundschuh, Y. Qi, Y. Wang, R. Takeda, A. R. Harris, C. Molina, R. S. Nelson, and B. Ding (2007)
J. Virol.
81, 2980-2994
|Abstract »|Full Text »|PDF »
RNAi pathway is functional in peripheral nerve axons.
A. K. Murashov, V. Chintalgattu, R. R. Islamov, T. E. Lever, E. S. Pak, P. L. Sierpinski, L. C. Katwa, and M. R. Van Scott (2007)
FASEB J
21, 656-670
|Abstract »|Full Text »|PDF »
A Family of MicroRNAs Present in Plants and Animals.
M. Arteaga-Vazquez, J. Caballero-Perez, and J.-P. Vielle-Calzada (2006)
PLANT CELL
18, 3355-3369
|Abstract »|Full Text »|PDF »
MicroRNA-9a ensures the precise specification of sensory organ precursors in Drosophila.
Characterization of five microRNA families in maize.
E. Mica, L. Gianfranceschi, and M. E. Pe (2006)
J. Exp. Bot.
57, 2601-2612
|Abstract »|Full Text »|PDF »
Posttranscriptional Induction of Two Cu/Zn Superoxide Dismutase Genes in Arabidopsis Is Mediated by Downregulation of miR398 and Important for Oxidative Stress Tolerance.
A. Maggio, J.-K. Zhu, P. M. Hasegawa, and R. A. Bressan (2006)
PLANT CELL
18, 1542-1557
|Full Text »|PDF »
STABILIZED1, a Stress-Upregulated Nuclear Protein, Is Required for Pre-mRNA Splicing, mRNA Turnover, and Stress Tolerance in Arabidopsis.
B.-h. Lee, A. Kapoor, J. Zhu, and J.-K. Zhu (2006)
PLANT CELL
18, 1736-1749
|Abstract »|Full Text »|PDF »
MicroRNA-Targeted and Small Interfering RNA-Mediated mRNA Degradation Is Regulated by Argonaute, Dicer, and RNA-Dependent RNA Polymerase in Arabidopsis.
M. Ronemus, M. W. Vaughn, and R. A. Martienssen (2006)
PLANT CELL
18, 1559-1574
|Abstract »|Full Text »|PDF »
An antibody-based microarray assay for small RNA detection.
Z. Hu, A. Zhang, G. Storz, S. Gottesman, and S. H. Leppla (2006)
Nucleic Acids Res.
34, e52
|Abstract »|Full Text »|PDF »
Post-transcriptional small RNA pathways in plants: mechanisms and regulations..
Regulation of Phosphate Homeostasis by MicroRNA in Arabidopsis.
T.-J. Chiou, K. Aung, S.-I Lin, C.-C. Wu, S.-F. Chiang, and C.-l. Su (2006)
PLANT CELL
18, 412-421
|Abstract »|Full Text »|PDF »
Experimental validation of the regulated expression of large numbers of non-coding RNAs from the mouse genome.
T. Ravasi, H. Suzuki, K. C. Pang, S. Katayama, M. Furuno, R. Okunishi, S. Fukuda, K. Ru, M. C. Frith, M. M. Gongora, et al. (2006)
Genome Res.
16, 11-19
|Abstract »|Full Text »|PDF »
MicroRNAs 221 and 222 inhibit normal erythropoiesis and erythroleukemic cell growth via kit receptor down-modulation.
N. Felli, L. Fontana, E. Pelosi, R. Botta, D. Bonci, F. Facchiano, F. Liuzzi, V. Lulli, O. Morsilli, S. Santoro, et al. (2005)
PNAS
102, 18081-18086
|Abstract »|Full Text »|PDF »
Double-Stranded RNA Induces Sequence-Specific Antiviral Silencing in Addition to Nonspecific Immunity in a Marine Shrimp: Convergence of RNA Interference and Innate Immunity in the Invertebrate Antiviral Response?.
J. Robalino, T. Bartlett, E. Shepard, S. Prior, G. Jaramillo, E. Scura, R. W. Chapman, P. S. Gross, C. L. Browdy, and G. W. Warr (2005)
J. Virol.
79, 13561-13571
|Abstract »|Full Text »|PDF »
Single-Strand Conformation Polymorphism (SSCP) of Oligodeoxyribonucleotides: An Insight into Solution Structural Dynamics of DNAs Provided by Gel Electrophoresis and Molecular Dynamics Simulations.
Extensive 3' modification of plant small RNAs is modulated by helper component-proteinase expression.
H. A. Ebhardt, E. P. Thi, M.-B. Wang, and P. J. Unrau (2005)
PNAS
102, 13398-13403
|Abstract »|Full Text »|PDF »
MicroRNA Mirn122a Reduces Expression of the Posttranscriptionally Regulated Germ Cell Transition Protein 2 (Tnp2) Messenger RNA (mRNA) by mRNA Cleavage.
Telencephalic Embryonic Subtractive Sequences: A Unique Collection of Neurodevelopmental Genes.
A. Bulfone, P. Carotenuto, A. Faedo, V. Aglio, L. Garzia, A. M. Bello, A. Basile, A. Andre, M. Cocchia, O. Guardiola, et al. (2005)
J. Neurosci.
25, 7586-7600
|Abstract »|Full Text »|PDF »
Identification and characterization of endogenous small interfering RNAs from rice.
R. Sunkar, T. Girke, and J.-K. Zhu (2005)
Nucleic Acids Res.
33, 4443-4454
|Abstract »|Full Text »|PDF »
Novel and Mechanical Stress-Responsive MicroRNAs in Populus trichocarpa That Are Absent from Arabidopsis.
S. Lu, Y.-H. Sun, R. Shi, C. Clark, L. Li, and V. L. Chiang (2005)
PLANT CELL
17, 2186-2203
|Abstract »|Full Text »|PDF »
A database analysis method identifies an endogenous trans-acting short-interfering RNA that targets the Arabidopsis ARF2, ARF3, and ARF4 genes.
L. Williams, C. C. Carles, K. S. Osmont, and J. C. Fletcher (2005)
PNAS
102, 9703-9708
|Abstract »|Full Text »|PDF »
MicroInspector: a web tool for detection of miRNA binding sites in an RNA sequence.
V. Rusinov, V. Baev, I. N. Minkov, and M. Tabler (2005)
Nucleic Acids Res.
33, W696-W700
|Abstract »|Full Text »|PDF »
miRU: an automated plant miRNA target prediction server.
Adenosine Kinase Inhibition and Suppression of RNA Silencing by Geminivirus AL2 and L2 Proteins.
H. Wang, K. J. Buckley, X. Yang, R. C. Buchmann, and D. M. Bisaro (2005)
J. Virol.
79, 7410-7418
|Abstract »|Full Text »|PDF »
Plant Virus-Derived Small Interfering RNAs Originate Predominantly from Highly Structured Single-Stranded Viral RNAs.
A. Molnar, T. Csorba, L. Lakatos, E. Varallyay, C. Lacomme, and J. Burgyan (2005)
J. Virol.
79, 7812-7818
|Abstract »|Full Text »|PDF »
Aureusvirus P14 Is an Efficient RNA Silencing Suppressor That Binds Double-Stranded RNAs without Size Specificity.
Z. Merai, Z. Kerenyi, A. Molnar, E. Barta, A. Valoczi, G. Bisztray, Z. Havelda, J. Burgyan, and D. Silhavy (2005)
J. Virol.
79, 7217-7226
|Abstract »|Full Text »|PDF »
Viral Class 1 RNase III Involved in Suppression of RNA Silencing.
J. F. Kreuze, E. I. Savenkov, W. Cuellar, X. Li, and J. P. T. Valkonen (2005)
J. Virol.
79, 7227-7238
|Abstract »|Full Text »|PDF »
Gene Family Analysis of the Arabidopsis Pollen Transcriptome Reveals Biological Implications for Cell Growth, Division Control, and Gene Expression Regulation.
C. Pina, F. Pinto, J. A. Feijo, and J. D. Becker (2005)
Plant Physiology
138, 744-756
|Abstract »|Full Text »|PDF »
Cloning and Characterization of MicroRNAs from Rice.
R. Sunkar, T. Girke, P. K. Jain, and J.-K. Zhu (2005)
PLANT CELL
17, 1397-1411
|Abstract »|Full Text »|PDF »
MicroRNA-Directed Regulation of Arabidopsis AUXIN RESPONSE FACTOR17 Is Essential for Proper Development and Modulates Expression of Early Auxin Response Genes.
A. C. Mallory, D. P. Bartel, and B. Bartel (2005)
PLANT CELL
17, 1360-1375
|Abstract »|Full Text »|PDF »
MicroRNA Directs mRNA Cleavage of the Transcription Factor NAC1 to Downregulate Auxin Signals for Arabidopsis Lateral Root Development.
H.-S. Guo, Q. Xie, J.-F. Fei, and N.-H. Chua (2005)
PLANT CELL
17, 1376-1386
|Abstract »|Full Text »|PDF »
Comparing low coverage random shotgun sequence data from Brassica oleracea and Oryza sativa genome sequence for their ability to add to the annotation of Arabidopsis thaliana.
M. S. Katari, V. Balija, R. K. Wilson, R. A. Martienssen, and W. R. McCombie (2005)
Genome Res.
15, 496-504
|Abstract »|Full Text »|PDF »
Dicer Is Required for Embryonic Angiogenesis during Mouse Development.
W. J. Yang, D. D. Yang, S. Na, G. E. Sandusky, Q. Zhang, and G. Zhao (2005)
J. Biol. Chem.
280, 9330-9335
|Abstract »|Full Text »|PDF »
Suppression of RNA Silencing by a Geminivirus Nuclear Protein, AC2, Correlates with Transactivation of Host Genes.
D. Trinks, R. Rajeswaran, P. V. Shivaprasad, R. Akbergenov, E. J. Oakeley, K. Veluthambi, T. Hohn, and M. M. Pooggin (2005)
J. Virol.
79, 2517-2527
|Abstract »|Full Text »|PDF »
The Rb7 Matrix Attachment Region Increases the Likelihood and Magnitude of Transgene Expression in Tobacco Cells: A Flow Cytometric Study.
B.-C. Yoo, F. Kragler, E. Varkonyi-Gasic, V. Haywood, S. Archer-Evans, Y. M. Lee, T. J. Lough, and W. J. Lucas (2004)
PLANT CELL
16, 1979-2000
|Abstract »|Full Text »|PDF »
Quantitation of microRNAs using a modified Invader assay.
H. T. ALLAWI, J. E. DAHLBERG, S. OLSON, E. LUND, M. OLSON, W.-P. MA, T. TAKOVA, B. P. NERI, and V. I. LYAMICHEV (2004)
RNA
10, 1153-1161
|Abstract »|Full Text »|PDF »
Methods for Transcriptional Profiling in Plants. Be Fruitful and Replicate.
B. C. Meyers, D. W. Galbraith, T. Nelson, and V. Agrawal (2004)
Plant Physiology
135, 637-652
|Full Text »|PDF »
Molecular and Genetic Mechanisms of Floral Control.