Note to users. If you're seeing this message, it means that your browser cannot find this page's style/presentation instructions -- or possibly that you are using a browser that does not support current Web standards. Find out more about why this message is appearing, and what you can do to make your experience of our site the best it can be.
Small RNA guidesmicroRNAs, small interfering RNAs, andrepeat-associated small interfering RNAs, 21 to 30 nucleotidesin lengthshape diverse cellular pathways, from chromosomearchitecture to stem cell maintenance. Fifteen years after thediscovery of RNA silencing, we are only just beginning to understandthe depth and complexity of how these RNAs regulate gene expressionand to consider their role in shaping the evolutionary historyof higher eukaryotes.
Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA.
* To whom correspondence should be addressed. E-mail: phillip.zamore{at}umassmed.edu
The editors suggest the following Related Resources on Science sites:
In Science Magazine
INTRODUCTION TO SPECIAL ISSUE
Guy Riddihough (2 September 2005) Science309 (5740), 1507.
[DOI: 10.1126/science.309.5740.1507] |Summary »|PDF »
THIS ARTICLE HAS BEEN CITED BY OTHER ARTICLES:
A diverse set of microRNAs and microRNA-like small RNAs in developing rice grains.
Q.-H. Zhu, A. Spriggs, L. Matthew, L. Fan, G. Kennedy, F. Gubler, and C. Helliwell (2008)
Genome Res.
18, 1456-1465
|Abstract »|Full Text »|PDF »
Inducible expression of microRNA-194 is regulated by HNF-1{alpha} during intestinal epithelial cell differentiation.
K. Hino, K. Tsuchiya, T. Fukao, K. Kiga, R. Okamoto, T. Kanai, and M. Watanabe (2008)
RNA
14, 1433-1442
|Abstract »|Full Text »|PDF »
MicroRNA-210 Modulates Endothelial Cell Response to Hypoxia and Inhibits the Receptor Tyrosine Kinase Ligand Ephrin-A3.
P. Fasanaro, Y. D'Alessandra, V. Di Stefano, R. Melchionna, S. Romani, G. Pompilio, M. C. Capogrossi, and F. Martelli (2008)
J. Biol. Chem.
283, 15878-15883
|Abstract »|Full Text »|PDF »
A multifunctional human Argonaute2-specific monoclonal antibody.
S. Rudel, A. Flatley, L. Weinmann, E. Kremmer, and G. Meister (2008)
RNA
14, 1244-1253
|Abstract »|Full Text »|PDF »
Organization and transcriptional output of a novel mRNA-like piRNA gene (mpiR) located on mouse chromosome 10.
M. Kim, B. Patel, K. E. Schroeder, A. Raza, and J. Dejong (2008)
RNA
14, 1005-1011
|Abstract »|Full Text »|PDF »
Genomic and epigenetic alterations deregulate microRNA expression in human epithelial ovarian cancer.
L. Zhang, S. Volinia, T. Bonome, G. A. Calin, J. Greshock, N. Yang, C.-G. Liu, A. Giannakakis, P. Alexiou, K. Hasegawa, et al. (2008)
PNAS
105, 7004-7009
|Abstract »|Full Text »|PDF »
Experimental validation of the importance of seed complement frequency to siRNA specificity.
E. M. Anderson, A. Birmingham, S. Baskerville, A. Reynolds, E. Maksimova, D. Leake, Y. Fedorov, J. Karpilow, and A. Khvorova (2008)
RNA
14, 853-861
|Abstract »|Full Text »|PDF »
R-Coffee: a method for multiple alignment of non-coding RNA.
A. Wilm, D. G. Higgins, and C. Notredame (2008)
Nucleic Acids Res.
36, e52
|Abstract »|Full Text »|PDF »
Diversification of the Core RNA Interference Machinery in Chlamydomonas reinhardtii and the Role of DCL1 in Transposon Silencing.
J. A. Casas-Mollano, J. Rohr, E.-J. Kim, E. Balassa, K. van Dijk, and H. Cerutti (2008)
Genetics
179, 69-81
|Abstract »|Full Text »|PDF »
Adaptive Evolution of Newly Emerged Micro-RNA Genes in Drosophila.
J. Lu, Y. Fu, S. Kumar, Y. Shen, K. Zeng, A. Xu, R. Carthew, and C.-I Wu (2008)
Mol. Biol. Evol.
25, 929-938
|Abstract »|Full Text »|PDF »
The growing catalog of small RNAs and their association with distinct Argonaute/Piwi family members.
T. A. Farazi, S. A. Juranek, and T. Tuschl (2008)
Development
135, 1201-1214
|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 »
EBV MicroRNAs in Primary Lymphomas and Targeting of CXCL-11 by ebv-mir-BHRF1-3.
T. Xia, A. O'Hara, I. Araujo, J. Barreto, E. Carvalho, J. B. Sapucaia, J. C. Ramos, E. Luz, C. Pedroso, M. Manrique, et al. (2008)
Cancer Res.
68, 1436-1442
|Abstract »|Full Text »|PDF »
Putative promoter regions of miRNA genes involved in evolutionarily conserved regulatory systems among vertebrates.
A novel class of bacteria-induced small RNAs in Arabidopsis.
S. Katiyar-Agarwal, S. Gao, A. Vivian-Smith, and H. Jin (2007)
Genes & Dev.
21, 3123-3134
|Abstract »|Full Text »|PDF »
The small RNA repertoire of Dictyostelium discoideum and its regulation by components of the RNAi pathway.
A. Hinas, J. Reimegard, E. G. H. Wagner, W. Nellen, V. R. Ambros, and F. Soderbom (2007)
Nucleic Acids Res.
35, 6714-6726
|Abstract »|Full Text »|PDF »
The Oncogenic microRNA-27a Targets Genes That Regulate Specificity Protein Transcription Factors and the G2-M Checkpoint in MDA-MB-231 Breast Cancer Cells.
S. U. Mertens-Talcott, S. Chintharlapalli, X. Li, and S. Safe (2007)
Cancer Res.
67, 11001-11011
|Abstract »|Full Text »|PDF »
P68 RNA Helicase Unwinds the Human let-7 MicroRNA Precursor Duplex and Is Required for let-7-directed Silencing of Gene Expression.
D. W. Salzman, J. Shubert-Coleman, and H. Furneaux (2007)
J. Biol. Chem.
282, 32773-32779
|Abstract »|Full Text »|PDF »
Determinants of targeting by endogenous and exogenous microRNAs and siRNAs.
C. B. Nielsen, N. Shomron, R. Sandberg, E. Hornstein, J. Kitzman, and C. B Burge (2007)
RNA
13, 1894-1910
|Abstract »|Full Text »|PDF »
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 »
Antisense Transcription in the Human Cytomegalovirus Transcriptome.
G. Zhang, B. Raghavan, M. Kotur, J. Cheatham, D. Sedmak, C. Cook, J. Waldman, and J. Trgovcich (2007)
J. Virol.
81, 11267-11281
|Abstract »|Full Text »|PDF »
Modification of Small RNAs Associated with Suppression of RNA Silencing by Tobamovirus Replicase Protein.
H. Vogler, R. Akbergenov, P. V. Shivaprasad, V. Dang, M. Fasler, M.-O. Kwon, S. Zhanybekova, T. Hohn, and M. Heinlein (2007)
J. Virol.
81, 10379-10388
|Abstract »|Full Text »|PDF »
MicroRNA Signatures in Human Ovarian Cancer.
M. V. Iorio, R. Visone, G. Di Leva, V. Donati, F. Petrocca, P. Casalini, C. Taccioli, S. Volinia, C.-G. Liu, H. Alder, et al. (2007)
Cancer Res.
67, 8699-8707
|Abstract »|Full Text »|PDF »
Isolation of microRNA targets by miRNP immunopurification.
A more efficient RNAi inducible system for tight regulation of gene expression in mammalian cells and xenograft animals.
J. Zhang, C. Wang, N. Ke, J. Bliesath, J. Chionis, Q. S. He, Q.-x. Li, J. E. Chatterton, F. Wong-Staal, and D. Zhou (2007)
RNA
13, 1375-1383
|Abstract »|Full Text »|PDF »
Combinatorial delivery of small interfering RNAs reduces RNAi efficacy by selective incorporation into RISC.
D. Castanotto, K. Sakurai, R. Lingeman, H. Li, L. Shively, L. Aagaard, H. Soifer, A. Gatignol, A. Riggs, and J. J. Rossi (2007)
Nucleic Acids Res.
35, 5154-5164
|Abstract »|Full Text »|PDF »
Bsr, a Nuclear-retained RNA with Monoallelic Expression.
H. Royo, E. Basyuk, V. Marty, M. Marques, E. Bertrand, and J. Cavaille (2007)
Mol. Biol. Cell
18, 2817-2827
|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 »
Noncoding RNAs and RNA Editing in Brain Development, Functional Diversification, and Neurological Disease.
Small Interfering RNAs against the TAR RNA Binding Protein, TRBP, a Dicer Cofactor, Inhibit Human Immunodeficiency Virus Type 1 Long Terminal Repeat Expression and Viral Production.
H. S. Christensen, A. Daher, K. J. Soye, L. B. Frankel, M. R. Alexander, S. Laine, S. Bannwarth, C. L. Ong, S. W. L. Chung, S. M. Campbell, et al. (2007)
J. Virol.
81, 5121-5131
|Abstract »|Full Text »|PDF »
MicroRNA-21 Targets the Tumor Suppressor Gene Tropomyosin 1 (TPM1).
S. Zhu, M.-L. Si, H. Wu, and Y.-Y. Mo (2007)
J. Biol. Chem.
282, 14328-14336
|Abstract »|Full Text »|PDF »
Single nucleotide polymorphism associated with mature miR-125a alters the processing of pri-miRNA.
A novel microarray approach reveals new tissue-specific signatures of known and predicted mammalian microRNAs.
I. Beuvink, F. A. Kolb, W. Budach, A. Garnier, J. Lange, F. Natt, U. Dengler, J. Hall, W. Filipowicz, and J. Weiler (2007)
Nucleic Acids Res.
35, e52
|Abstract »|Full Text »|PDF »
A functional study of miR-124 in the developing neural tube.
Y. Sylvestre, V. De Guire, E. Querido, U. K. Mukhopadhyay, V. Bourdeau, F. Major, G. Ferbeyre, and P. Chartrand (2007)
J. Biol. Chem.
282, 2135-2143
|Abstract »|Full Text »|PDF »
Coordinate Suppression of ERBB2 and ERBB3 by Enforced Expression of Micro-RNA miR-125a or miR-125b.
G. K. Scott, A. Goga, D. Bhaumik, C. E. Berger, C. S. Sullivan, and C. C. Benz (2007)
J. Biol. Chem.
282, 1479-1486
|Abstract »|Full Text »|PDF »
Identification of estrogen-responsive genes in the parenchyma and fat pad of the bovine mammary gland by microarray analysis.
R. W. Li, M. J. Meyer, Curtis. P. Van Tassell, T. S. Sonstegard, E. E. Connor, M. E. Van Amburgh, Y. R. Boisclair, and A. V. Capuco (2007)
Physiol Genomics
27, 42-53
|Abstract »|Full Text »|PDF »
Direct and sensitive miRNA profiling from low-input total RNA.
More Than 40,000 Transcripts, Including Novel and Noncoding Transcripts, in Mouse Embryonic Stem Cells.
R. Araki, R. Fukumura, N. Sasaki, Y. Kasama, N. Suzuki, H. Takahashi, Y. Tabata, T. Saito, and M. Abe (2006)
Stem Cells
24, 2522-2528
|Abstract »|Full Text »|PDF »
Effects of Dicer and Argonaute down-regulation on mRNA levels in human HEK293 cells.
D. Schmitter, J. Filkowski, A. Sewer, R. S. Pillai, E. J. Oakeley, M. Zavolan, P. Svoboda, and W. Filipowicz (2006)
Nucleic Acids Res.
34, 4801-4815
|Abstract »|Full Text »|PDF »
Denoising feedback loops by thresholding--a new role for microRNAs..
S. M. Cohen, J. Brennecke, and A. Stark (2006)
Genes & Dev.
20, 2769-2772
|Full Text »|PDF »
trans Regulation of Cap-Independent Translation by a Viral Subgenomic RNA..
R. Shen, A. M. Rakotondrafara, and W. A. Miller (2006)
J. Virol.
80, 10045-10054
|Abstract »|Full Text »|PDF »
Trapped water molecules are essential to structural dynamics and function of a ribozyme.
M. M. Rhodes, K. Reblova, J. Sponer, and N. G. Walter (2006)
PNAS
103, 13380-13385
|Abstract »|Full Text »|PDF »
Marek's Disease Virus Encodes MicroRNAs That Map to meq and the Latency-Associated Transcript..
J. Burnside, E. Bernberg, A. Anderson, C. Lu, B. C. Meyers, P. J. Green, N. Jain, G. Isaacs, and R. W. Morgan (2006)
J. Virol.
80, 8778-8786
|Abstract »|Full Text »|PDF »
A microRNA detection system based on padlock probes and rolling circle amplification.
Characterization of the piRNA Complex from Rat Testes.
N. C. Lau, A. G. Seto, J. Kim, S. Kuramochi-Miyagawa, T. Nakano, D. P. Bartel, and R. E. Kingston (2006)
Science
313, 363-367
|Abstract »|Full Text »|PDF »
microRNAs exhibit high frequency genomic alterations in human cancer.
L. Zhang, J. Huang, N. Yang, J. Greshock, M. S. Megraw, A. Giannakakis, S. Liang, T. L. Naylor, A. Barchetti, M. R. Ward, et al. (2006)
PNAS
103, 9136-9141
|Abstract »|Full Text »|PDF »
Mg2+-Induced Compaction of Single RNA Molecules Monitored by Tethered Particle Microscopy.
M. Newby Lambert, E. Vocker, S. Blumberg, S. Redemann, A. Gajraj, J.-C. Meiners, and N. G. Walter (2006)
Biophys. J.
90, 3672-3685
|Abstract »|Full Text »|PDF »
Artificial control of gene expression in mammalian cells by modulating RNA interference through aptamer-small molecule interaction.
M. P. Czech (2006)
N. Engl. J. Med.
354, 1194-1195
|Full Text »|PDF »
The chromatoid body of male germ cells: Similarity with processing bodies and presence of Dicer and microRNA pathway components.
N. Kotaja, S. N. Bhattacharyya, L. Jaskiewicz, S. Kimmins, M. Parvinen, W. Filipowicz, and P. Sassone-Corsi (2006)
PNAS
103, 2647-2652
|Abstract »|Full Text »|PDF »
From the Cover: F-box-like domain in the polerovirus protein P0 is required for silencing suppressor function.
M. Pazhouhandeh, M. Dieterle, K. Marrocco, E. Lechner, B. Berry, Vér. Brault, O. Hemmer, T. Kretsch, K. E. Richards, P. Genschik, et al. (2006)
PNAS
103, 1994-1999
|Abstract »|Full Text »|PDF »
RAKE and LNA-ISH reveal microRNA expression and localization in archival human brain.
P. T. NELSON, D. A. BALDWIN, W. P. KLOOSTERMAN, S. KAUPPINEN, R. H.A. PLASTERK, and Z. MOURELATOS (2006)
RNA
12, 187-191
|Abstract »|Full Text »|PDF »
Genome annotation past, present, and future: How to define an ORF at each locus.