Access the full text.
Sign up today, get DeepDyve free for 14 days.
Jose Silva, Mamie Li, Ken Chang, W. Ge, M. Golding, R. Rickles, Despina Siolas, G. Hu, Patrick Paddison, M. Schlabach, N. Sheth, J. Bradshaw, J. Burchard, Amit Kulkarni, G. Cavet, R. Sachidanandam, W. McCombie, M. Cleary, S. Elledge, G. Hannon (2005)
Second-generation shRNA libraries covering the mouse and human genomesNature Genetics, 37
A. Fire, Siqun Xu, M. Montgomery, S. Kostas, Samuel Driver, C. Mello (1998)
Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegansNature, 391
B. Yoo, F. Kragler, E. Varkonyi-Gasic, V. Haywood, Sarah Archer-Evans, Y. Lee, T. Lough, W. Lucas (2004)
A Systemic Small RNA Signaling System in PlantsThe Plant Cell Online, 16
C. Napoli, C. Lemieux, R. Jorgensen (1990)
Introduction of a Chimeric Chalcone Synthase Gene into Petunia Results in Reversible Co-Suppression of Homologous Genes in trans.The Plant cell, 2
K. Kasschau, Zhixin Xie, E. Allen, C. Llave, E. Chapman, Kate Krizan, J. Carrington (2003)
P1/HC-Pro, a viral suppressor of RNA silencing, interferes with Arabidopsis development and miRNA unction.Developmental cell, 4 2
J. Palatnik, Heike Wollmann, C. Schommer, R. Schwab, J. Boisbouvier, R. Rodriguez, N. Warthmann, E. Allen, Tobias Dezulian, D. Huson, J. Carrington, D. Weigel (2007)
Sequence and expression differences underlie functional specialization of Arabidopsis microRNAs miR159 and miR319.Developmental cell, 13 1
John Quackenbush, Jennifer Cho, Daniel Lee, F. Liang, I. Holt, S. Karamycheva, Babak Parvizi, G. Pertea, R. Sultana, Joseph White (2001)
The TIGR Gene Indices: analysis of gene transcript sequences in highly sampled eukaryotic speciesNucleic acids research, 29 1
A. Jackson, S. Bartz, Janell Schelter, Sumire Kobayashi, J. Burchard, M. Mao, Bin Li, G. Cavet, P. Linsley (2003)
Expression profiling reveals off-target gene regulation by RNAiNature Biotechnology, 21
P. Waterhouse, M. Graham, Ming-Bo Wang (1998)
Virus resistance and gene silencing in plants can be induced by simultaneous expression of sense and antisense RNA.Proceedings of the National Academy of Sciences of the United States of America, 95 23
Dang Long, Rosalind Lee, P. Williams, C. Chan, V. Ambros, Ye Ding (2007)
Potent effect of target structure on microRNA functionNature Structural &Molecular Biology, 14
J. Brennecke, A. Stark, R. Russell, S. Cohen (2005)
Principles of MicroRNA–Target RecognitionPLoS Biology, 3
B. Wightman, I. Ha, G. Ruvkun (1993)
Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C. elegansCell, 75
M. Mette, J. Winden, M. Matzke, A. Matzke (1999)
Production of aberrant promoter transcripts contributes to methylation and silencing of unlinked homologous promoters in transThe EMBO Journal, 18
M. Howell, N. Fahlgren, E. Chapman, Jason Cumbie, C. Sullivan, S. Givan, K. Kasschau, J. Carrington (2007)
Genome-Wide Analysis of the RNA-DEPENDENT RNA POLYMERASE6/DICER-LIKE4 Pathway in Arabidopsis Reveals Dependency on miRNA- and tasiRNA-Directed Targeting
M. Jones-Rhoades, D. Bartel, B. Bartel (2006)
MicroRNAS and their regulatory roles in plants.Annual review of plant biology, 57
A. Birmingham, E. Anderson, A. Reynolds, Diane Ilsley-Tyree, D. Leake, Yuriy Fedorov, S. Baskerville, E. Maksimova, Kathryn Robinson, J. Karpilow, W. Marshall, A. Khvorova (2006)
3′ UTR seed matches, but not overall identity, are associated with RNAi off-targetsNature Methods, 3
M. Montgomery, S. Xu, A. Fire (1998)
RNA as a target of double-stranded RNA-mediated genetic interference in Caenorhabditis elegans.Proceedings of the National Academy of Sciences of the United States of America, 95 26
Surekha Katiyar-Agarwal, Rebekah Morgan, D. Dahlbeck, O. Borsani, Andy Villegas, Jian‐Kang Zhu, B. Staskawicz, Hailing Jin (2006)
A pathogen-inducible endogenous siRNA in plant immunityProceedings of the National Academy of Sciences, 103
C. Matranga, Yukihide Tomari, C. Shin, D. Bartel, P. Zamore (2005)
Passenger-Strand Cleavage Facilitates Assembly of siRNA into Ago2-Containing RNAi Enzyme ComplexesCell, 123
O. Voinnet (2005)
Induction and suppression of RNA silencing: insights from viral infectionsNature Reviews Genetics, 6
P. Hilson, J. Allemeersch, T. Altmann, S. Aubourg, A. Avon, J. Beynon, R. Bhalerao, F. Bitton, M. Caboche, Bernard Cannoot, Vasil Chardakov, Cécile Cognet-Holliger, V. Colot, M. Crowe, C. Darimont, S. Durinck, H. Eickhoff, Andéol Longevialle, E. Farmer, M. Grant, Martin Kuiper, H. Lehrach, Céline Léon, A. Leyva, J. Lundeberg, C. Lurin, Y. Moreau, W. Nietfeld, J. Paz-Ares, P. Reymond, P. Rouzé, G. Sandberg, Maria Segura, C. Serizet, A. Tabrett, L. Taconnat, V. Thareau, P. Hummelen, Steven Vercruysse, M. Vuylsteke, M. Weingartner, P. Weisbeek, V. Wirta, F. Wittink, M. Zabeau, I. Small (2004)
Versatile gene-specific sequence tags for Arabidopsis functional genomics: transcript profiling and reverse genetics applications.Genome research, 14 10B
A. Steppuhn, K. Gase, B. Krock, R. Halitschke, I. Baldwin (2004)
Nicotine's Defensive Function in NaturePLoS Biology, 2
Marita Overhoff, M. Alken, R. Far, M. Lemaitre, B. Lebleu, G. Sczakiel, I. Robbins (2005)
Local RNA target structure influences siRNA efficacy: a systematic global analysis.Journal of molecular biology, 348 4
Jeanne Beatty-DeSana, Margaret Hoggard, J. Cooledge (1975)
[Letters to nature]Nature, 255
Hai Li, Phoebe Johnson, A. Stepanova, J. Alonso, J. Ecker (2004)
Convergence of signaling pathways in the control of differential cell growth in Arabidopsis.Developmental cell, 7 2
Science
Z. Lippman, R. Martienssen (2004)
The role of RNA interference in heterochromatic silencingNature, 431
A. Pasquinelli, B. Reinhart, F. Slack, M. Martindale, M. Kuroda, Betsy Maller, D. Hayward, E. Ball, B. Degnan, P. Müller, J. Spring, Ashok Srinivasan, M. Fishman, J. Finnerty, J. Corbo, M. Levine, P. Leahy, E. Davidson, G. Ruvkun (2000)
Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNANature, 408
D. Schwarz, Hongliu Ding, Lori Kennington, J. Moore, Janell Schelter, J. Burchard, P. Linsley, N. Aronin, Zuoshang Xu, P. Zamore (2006)
Designing siRNA That Distinguish between Genes That Differ by a Single NucleotidePLoS Genetics, 2
L. Jones, A. Hamilton, O. Voinnet, Carole Thomas, A. Maule, D. Baulcombe (1999)
RNA–DNA Interactions and DNA Methylation in Post-Transcriptional Gene SilencingPlant Cell, 11
O. Voinnet (2005)
Non‐cell autonomous RNA silencingFEBS Letters, 579
Rosalind Lee, Rhonda Feinbaum, V. Ambros (1993)
The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14Cell, 75
N. Baumberger, D. Baulcombe (2005)
Arabidopsis ARGONAUTE1 is an RNA Slicer that selectively recruits microRNAs and short interfering RNAs.Proceedings of the National Academy of Sciences of the United States of America, 102 33
Bin Yu, Zhiyong Yang, Junjie Li, S. Minakhina, Maocheng Yang, R. Padgett, R. Steward, Xuemei Chen (2005)
Methylation as a Crucial Step in Plant microRNA BiogenesisScience, 307
K. Chang, S. Elledge, G. Hannon (2006)
Lessons from Nature: microRNA-based shRNA librariesNature Methods, 3
Kyuha Choi, Chul-Hyoung Park, Jungeun Lee, Mijin Oh, B. Noh, Ilha Lee (2007)
Arabidopsis homologs of components of the SWR1 complex regulate flowering and plant development, 134
Yong Ma, A. Creanga, L. Lum, P. Beachy (2006)
Prevalence of off-target effects in Drosophila RNA interference screensNature, 443
Madhuri Gandikota, R. Birkenbihl, S. Höhmann, G. Cardon, H. Saedler, P. Huijser (2007)
The miRNA156/157 recognition element in the 3' UTR of the Arabidopsis SBP box gene SPL3 prevents early flowering by translational inhibition in seedlings.The Plant journal : for cell and molecular biology, 49 4
T. Zhao, Guanglin Li, Shijun Mi, Shan Li, G. Hannon, Xiu-Jie Wang, Y. Qi (2007)
A complex system of small RNAs in the unicellular green alga Chlamydomonas reinhardtii.Genes & development, 21 10
The Initiative (2000)
Analysis of the genome sequence of the flowering plant Arabidopsis thalianaNature, 408
Hammond (2000)
An RNA-directed nuclease mediates post-transcriptional gene silencing in Drosophila cellsNature, 404
R. Allen, A. Millgate, J. Chitty, Jennifer Thisleton, J. Miller, A. Fist, W. Gerlach, P. Larkin (2004)
RNAi-mediated replacement of morphine with the nonnarcotic alkaloid reticuline in opium poppyNature Biotechnology, 22
(2008)
The Authors Journal compilation a 2008
H. Donis-Keller (1979)
Site specific enzymatic cleavage of RNANucleic acids research, 7 1
Xiu-Jie Wang, T. Gaasterland, N. Chua (2005)
Genome-wide prediction and identification of cis-natural antisense transcripts in Arabidopsis thalianaGenome Biology, 6
P. Zamore, T. Tuschl, P. Sharp, D. Bartel (2000)
RNAi Double-Stranded RNA Directs the ATP-Dependent Cleavage of mRNA at 21 to 23 Nucleotide IntervalsCell, 101
W. Aufsatz, M. Mette, J. Winden, A. Matzke, M. Matzke (2002)
RNA-directed DNA methylation in ArabidopsisProceedings of the National Academy of Sciences of the United States of America, 99
Chih-Hung Jen, I. Michalopoulos, D. Westhead, P. Meyer (2005)
Natural antisense transcripts with coding capacity in Arabidopsis may have a regulatory role that is not linked to double-stranded RNA degradationGenome Biology, 6
C. Chuang, E. Meyerowitz (2000)
Specific and heritable genetic interference by double-stranded RNA in Arabidopsis thaliana.Proceedings of the National Academy of Sciences of the United States of America, 97 9
R. Jorgensen, N. Doetsch, A. Müller, Q. Que, K. Gendler, C. Napoli (2006)
A paragenetic perspective on integration of RNA silencing into the epigenome and its role in the biology of higher plants.Cold Spring Harbor symposia on quantitative biology, 71
Kayoko Yamada, Jun-Man Lim, Joseph Dale, Huaming Chen, P. Shinn, C. Palm, Audrey Southwick, Hank Wu, Christopher Kim, M. Nguyen, Paul Pham, Rosa Cheuk, George Karlin-Newmann, Shirley Liu, Bao Lam, H. Sakano, Troy Wu, Guixia Yu, Molly Miranda, H. Quach, M. Tripp, Charlie Chang, J. Lee, Mitsue Toriumi, Marie Chan, C. Tang, C. Onodera, Justine Deng, Kenji Akiyama, Yasser Ansari, T. Arakawa, Jenny Banh, Fumika Banno, Leah Bowser, Shelise Brooks, Piero Carninci, Qimin Chao, Nathan Choy, A. Enju, A. Goldsmith, M. Gurjal, Nancy Hansen, Y. Hayashizaki, Chanda Johnson-Hopson, Vickie Hsuan, K. Iida, Meagan Karnes, Shehnaz Khan, Eric Koesema, Junko Ishida, P. Jiang, Ted Jones, J. Kawai, Asako Kamiya, Cristina Meyers, Maiko Nakajima, M. Narusaka, M. Seki, Tetsuya Sakurai, Masakazu Satou, R. Tamse, M. Vaysberg, Erika Wallender, Cecilia Wong, Y. Yamamura, Shiaulou Yuan, K. Shinozaki, Ronald Davis, A. Theologis, J. Ecker (2003)
Empirical Analysis of Transcriptional Activity in the Arabidopsis GenomeScience, 302
H. Nour-Eldin, B. Hansen, Morten Nørholm, J. Jensen, B. Halkier (2006)
Advancing uracil-excision based cloning towards an ideal technique for cloning PCR fragmentsNucleic Acids Research, 34
Henrique Teotónio, Michael Rose (2000)
Variation in the reversibility of evolutionNature, 408
M. Aukerman, H. Sakai (2003)
Regulation of Flowering Time and Floral Organ Identity by a MicroRNA and Its APETALA2-Like Target Genes Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.016238.The Plant Cell Online, 15
A. Molnár, Tibor Csorba, L. Lakatos, É. Várallyay, C. Lacomme, J. Burgyán (2005)
Plant Virus-Derived Small Interfering RNAs Originate Predominantly from Highly Structured Single-Stranded Viral RNAsJournal of Virology, 79
M. Matzke, T. Kanno, Bruno Huettel, L. Daxinger, A. Matzke (2006)
RNA-directed DNA methylation and Pol IVb in Arabidopsis.Cold Spring Harbor symposia on quantitative biology, 71
Anders Lindroth, Xiaofeng Cao, J. Jackson, Daniel Zilberman, C. McCallum, S. Henikoff, S. Jacobsen (2001)
Requirement of CHROMOMETHYLASE3 for Maintenance of CpXpG MethylationScience, 292
S. Dinesh-Kumar, R. Anandalakshmi, R. Marathe, Michael Schiff, Yule Liu (2003)
Virus-induced gene silencing.Methods in molecular biology, 236
Jing Qu, Jianheng Ye, R. Fang (2007)
Artificial MicroRNA-Mediated Virus Resistance in PlantsJournal of Virology, 81
H. Vaucheret (2006)
Post-transcriptional small RNA pathways in plants: mechanisms and regulations.Genes & development, 20 7
M. Ruiz, O. Voinnet, D. Baulcombe (1998)
Initiation and Maintenance of Virus-Induced Gene SilencingPlant Cell, 10
Hamilton (1999)
A species of small antisense RNA in posttranscriptional gene silencing in plantsScience, 286
J. Mol, A. Krol, A. Tunen, R. Blokland, P. Lange, A. Stuitje (1990)
Regulation of plant gene expression by antisense RNAFEBS Letters, 268
L. Timmons, A. Fire (1998)
Specific interference by ingested dsRNANature, 395
J. Emery, S. Floyd, J. Alvarez, Y. Eshed, N. Hawker, A. Izhaki, S. Baum, J. Bowman (2003)
Radial Patterning of Arabidopsis Shoots by Class III HD-ZIP and KANADI GenesCurrent Biology, 13
R. Rajagopalan, H. Vaucheret, Jerry Trejo, D. Bartel (2006)
A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana.Genes & development, 20 24
Qinglin Niu, Shih-Shun Lin, J. Reyes, Kuan-Chun Chen, Hui-Wen Wu, S. Yeh, N. Chua (2006)
Expression of artificial microRNAs in transgenic Arabidopsis thaliana confers virus resistanceNature Biotechnology, 24
J. Watson, A. Fusaro, Ming-Bo Wang, P. Waterhouse (2005)
RNA silencing platforms in plantsFEBS Letters, 579
R. Schwab, S. Ossowski, Markus Riester, N. Warthmann, D. Weigel (2006)
Highly Specific Gene Silencing by Artificial MicroRNAs in Arabidopsis[W][OA]The Plant Cell Online, 18
A. Hamilton, O. Voinnet, Louise Chappell, D. Baulcombe (2002)
Two classes of short interfering RNA in RNA silencingThe EMBO Journal, 21
M. Juarez, Jonathan Kui, Julie Thomas, B. Heller, M. Timmermans (2004)
microRNA-mediated repression of rolled leaf1 specifies maize leaf polarityNature, 428
A. Khvorova, A. Reynolds, S. Jayasena (2003)
Functional siRNAs and miRNAs Exhibit Strand BiasCell, 115
M. Ronemus, M. Vaughn, R. Martienssen (2006)
MicroRNA-Targeted and Small Interfering RNA–Mediated mRNA Degradation Is Regulated by Argonaute, Dicer, and RNA-Dependent RNA Polymerase in Arabidopsis[W][OA]The Plant Cell Online, 18
Eugene Berezikov, E. Cuppen, R. Plasterk (2006)
Approaches to microRNA discoveryNature Genetics, 38 Suppl 1
Junjie Li, Zhiyong Yang, Bin Yu, Jun Liu, Xuemei Chen (2005)
Methylation Protects miRNAs and siRNAs from a 3′-End Uridylation Activity in ArabidopsisCurrent Biology, 15
A. Hamilton, Jidong Liu, M. Carmell, Fabiola Rivas, Carolyn Marsden, J. Thomson, Ji-Joon Song, Ian MacRae, Kaihong Zhou, Adrian Repic, Angela Brooks, W. Cande, Paul Adams (2006)
Posttranscriptional Gene Silencing in Plants
Xiaoyu Lin, Xiaoan Ruan, Mark Anderson, J. Mcdowell, P. Kroeger, S. Fesik, Yu-Xian Shen (2005)
siRNA-mediated off-target gene silencing triggered by a 7 nt complementationNucleic Acids Research, 33
R. Schwab, J. Palatnik, Markus Riester, C. Schommer, M. Schmid, D. Weigel (2005)
Specific effects of microRNAs on the plant transcriptome.Developmental cell, 8 4
N. Fahlgren, M. Howell, K. Kasschau, E. Chapman, C. Sullivan, Jason Cumbie, S. Givan, T. Law, S. Grant, J. Dangl, J. Carrington (2007)
High-Throughput Sequencing of Arabidopsis microRNAs: Evidence for Frequent Birth and Death of MIRNA GenesPLoS ONE, 2
A. Deleris, Javier Gallego-Bartolomé, J. Bao, K. Kasschau, J. Carrington, O. Voinnet (2006)
Hierarchical Action and Inhibition of Plant Dicer-Like Proteins in Antiviral DefenseScience, 313
J. Mathieu, N. Warthmann, Frank Küttner, M. Schmid (2007)
Export of FT Protein from Phloem Companion Cells Is Sufficient for Floral Induction in ArabidopsisCurrent Biology, 17
Patrick Paddison, A. Caudy, E. Bernstein, G. Hannon, D. Conklin (2002)
Short hairpin RNAs (shRNAs) induce sequence-specific silencing in mammalian cells.Genes & development, 16 8
Emily Bernstein, A. Caudy, Scott Hammond, Gregory Hannon (2001)
Role for a bidentate ribonuclease in the initiation step of RNA interference
Stefan Ameres, Javier Martinez, R. Schroeder (2007)
Molecular Basis for Target RNA Recognition and Cleavage by Human RISCCell, 130
P. Brodersen, O. Voinnet (2006)
The diversity of RNA silencing pathways in plants.Trends in genetics : TIG, 22 5
O. Borsani, Jianhua Zhu, P. Verslues, R. Sunkar, Jian‐Kang Zhu (2005)
Endogenous siRNAs Derived from a Pair of Natural cis-Antisense Transcripts Regulate Salt Tolerance in ArabidopsisCell, 123
A. Kerschen, C. Napoli, R. Jorgensen, A. Müller (2004)
Effectiveness of RNA interference in transgenic plantsFEBS Letters, 566
Yule Liu, Michael Schiff, S. Dinesh-Kumar (2002)
Virus-induced gene silencing in tomato.The Plant journal : for cell and molecular biology, 31 6
P. Xu, Yuanji Zhang, L. Kang, M. Roossinck, K. Mysore (2006)
Computational Estimation and Experimental Verification of Off-Target Silencing during Posttranscriptional Gene Silencing in Plants1[W][OA]Plant Physiology, 142
Yan Zeng, E. Wagner, B. Cullen (2002)
Both natural and designed micro RNAs can inhibit the expression of cognate mRNAs when expressed in human cells.Molecular cell, 9 6
D. Schwarz, G. Hutvagner, T. Du, Zuoshang Xu, N. Aronin, P. Zamore (2003)
Asymmetry in the Assembly of the RNAi Enzyme ComplexCell, 115
G. Hannon, Fabiola Rivas, E. Murchison, J. Steitz (2006)
The expanding universe of noncoding RNAs.Cold Spring Harbor symposia on quantitative biology, 71
O. Voinnet, D. Baulcombe (1997)
Systemic signalling in gene silencingNature, 389
S. Schubert, A. Grünweller, V. Erdmann, J. Kurreck (2005)
Local RNA target structure influences siRNA efficacy: systematic analysis of intentionally designed binding regions.Journal of molecular biology, 348 4
M. Prins (2003)
Broad virus resistance in transgenic plants.Trends in biotechnology, 21 9
John Doench, P. Sharp (2004)
Specificity of microRNA target selection in translational repression.Genes & development, 18 5
(2008)
The Plant Journal
P. Dunoyer, C. Himber, O. Voinnet (2005)
DICER-LIKE 4 is required for RNA interference and produces the 21-nucleotide small interfering RNA component of the plant cell-to-cell silencing signalNature Genetics, 37
C. Llave, Z. Xie, K. Kasschau, J. Carrington, E. Meyerowitz, Y. Cheng, D. Jia, K. Jofuku, J. Bowman
A MicroRNA as a Translational Repressor of APETALA 2 in Arabidopsis Flower Development
M. Byzova, Christoph Verduyn, D. Brouwer, M. Block (2004)
Transforming petals into sepaloid organs in Arabidopsis and oilseed rape: implementation of the hairpin RNA-mediated gene silencing technology in an organ-specific mannerPlanta, 218
Ho-Ming Chen, Yi-Hang Li, Shu-Hsing Wu (2007)
Bioinformatic prediction and experimental validation of a microRNA-directed tandem trans-acting siRNA cascade in ArabidopsisProceedings of the National Academy of Sciences, 104
K. Iida, M. Seki, Tetsuya Sakurai, Masakazu Satou, Kenji Akiyama, Tetsuro Toyoda, A. Konagaya, K. Shinozaki (2004)
Genome-wide analysis of alternative pre-mRNA splicing in Arabidopsis thaliana based on full-length cDNA sequences.Nucleic acids research, 32 17
A. Molnár, F. Schwach, D. Studholme, E. Thuenemann, D. Baulcombe (2007)
miRNAs control gene expression in the single-cell alga Chlamydomonas reinhardtiiNature, 447
S. Lens, R. Wolthuis, R. Klompmaker, Jos Kauw, R. Agami, T. Brummelkamp, G. Kops, R. Medema (2003)
Survivin is required for a sustained spindle checkpoint arrest in response to lack of tensionThe EMBO Journal, 22
Zhixin Xie, L. Johansen, Adam Gustafson, K. Kasschau, Andrew Lellis, Daniel Zilberman, S. Jacobsen, J. Carrington (2004)
Genetic and Functional Diversification of Small RNA Pathways in PlantsPLoS Biology, 2
Ji-Joon Song, Stephanie Smith, G. Hannon, L. Joshua-Tor (2004)
Crystal Structure of Argonaute and Its Implications for RISC Slicer ActivityScience, 305
Sayda Elbashir, J. Harborth, Winfried Lendeckel, A. Yalçin, K. Weber, T. Tuschl (2001)
Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cellsNature, 411
J. Alvarez, I. Pekker, A. Goldshmidt, Eyal Blum, Z. Amsellem, Y. Eshed (2006)
Endogenous and Synthetic MicroRNAs Stimulate Simultaneous, Efficient, and Localized Regulation of Multiple Targets in Diverse Species[W]The Plant Cell Online, 18
S. Bernhart, Hakim Tafer, Ulrike Mückstein, C. Flamm, P. Stadler, I. Hofacker (2006)
Partition function and base pairing probabilities of RNA heterodimersAlgorithms for Molecular Biology, 1
C. Himber, P. Dunoyer, Guillaume Moissiard, C. Ritzenthaler, O. Voinnet (2003)
Transitivity‐dependent and ‐independent cell‐to‐cell movement of RNA silencingThe EMBO Journal, 22
Engineering small RNA-mediated gene silencing 687
Stefan Henz, Jason Cumbie, K. Kasschau, J. Lohmann, J. Carrington, D. Weigel, M. Schmid (2007)
Distinct Expression Patterns of Natural Antisense Transcripts in Arabidopsis1[C][W]Plant Physiology, 144
F. Geu-Flores, H. Nour-Eldin, M. Nielsen, B. Halkier (2007)
USER fusion: a rapid and efficient method for simultaneous fusion and cloning of multiple PCR productsNucleic Acids Research, 35
G. Davuluri, A. Tuinen, P. Fraser, A. Manfredonia, R. Newman, D. Burgess, D. Brummell, S. King, J. Palys, J. Uhlig, P. Bramley, H. Pennings, C. Bowler (2005)
Fruit-specific RNAi-mediated suppression of DET1 enhances carotenoid and flavonoid content in tomatoesNature Biotechnology, 23
Yoontae Lee, Minju Kim, Jinju Han, Kyu‐Hyun Yeom, Sanghyuk Lee, S. Baek, V. Kim (2004)
MicroRNA genes are transcribed by RNA polymerase IIThe EMBO Journal, 23
Allison Mallory, B. Reinhart, M. Jones-Rhoades, G. Tang, P. Zamore, M. Barton, David Bartel (2004)
MicroRNA control of PHABULOSA in leaf development: importance of pairing to the microRNA 5′ regionThe EMBO Journal, 23
M. Zuker (2003)
Mfold web server for nucleic acid folding and hybridization predictionNucleic acids research, 31 13
T. Tuschl, P. Zamore, R. Lehmann, D. Bartel, P. Sharp (1999)
Targeted mRNA degradation by double-stranded RNA in vitro.Genes & development, 13 24
H. Vaucheret, C. Beclin, M. Fagard (2001)
Post-transcriptional gene silencing in plants.Journal of cell science, 114 Pt 17
K. Kasschau, N. Fahlgren, E. Chapman, C. Sullivan, Jason Cumbie, S. Givan, J. Carrington (2007)
Genome-Wide Profiling and Analysis of Arabidopsis siRNAsPLoS Biology, 5
K. Bomblies, Janne Lempe, P. Epple, N. Warthmann, C. Lanz, J. Dangl, D. Weigel (2007)
Autoimmune Response as a Mechanism for a Dobzhansky-Muller-Type Incompatibility Syndrome in PlantsPLoS Biology, 5
Gang Wu, R. Poethig (2006)
Temporal regulation of shoot development in Arabidopsis thaliana by miR156 and its target SPL3, 133
E. Parizotto, P. Dunoyer, Nadia Rahm, C. Himber, O. Voinnet (2004)
In vivo investigation of the transcription, processing, endonucleolytic activity, and functional relevance of the spatial distribution of a plant miRNA.Genes & development, 18 18
Sizolwenkosi Mlotshwa, Zhiyong Yang, YunJu Kim, Xuemei Chen (2006)
Floral patterning defects induced by Arabidopsis APETALA2 and microRNA172 expression in Nicotiana benthamianaPlant Molecular Biology, 61
(2004)
Arabidopsis micro-RNA biogenesis through Dicer-like 1 protein functions.Proceedings of the National Academy of Sciences of the United States of America, 101 34
J. Palatnik, E. Allen, Xuelin Wu, C. Schommer, R. Schwab, J. Carrington, D. Weigel (2003)
Control of leaf morphogenesis by microRNAsNature, 425
C. Llave, Zhixin Xie, K. Kasschau, J. Carrington (2002)
Cleavage of Scarecrow-like mRNA Targets Directed by a Class of Arabidopsis miRNAScience, 297
Varsha Wesley, Chris Helliwell, Neil Smith, Ming-Bo Wang, Dean Rouse, Qing Liu, Paul Gooding, Surinder Singh, D. Abbott, Peter Stoutjesdijk, Simon Robinson, Andrew Gleave, Allan Green, Peter Waterhouse (2001)
Construct design for efficient, effective and high-throughput gene silencing in plants.The Plant journal : for cell and molecular biology, 27 6
N. Lauter, Archana Kampani, S. Carlson, M. Goebel, S. Moose (2005)
microRNA172 down-regulates glossy15 to promote vegetative phase change in maize.Proceedings of the National Academy of Sciences of the United States of America, 102 26
E. Allen, Zhixin Xie, Adam Gustafson, J. Carrington (2005)
microRNA-Directed Phasing during Trans-Acting siRNA Biogenesis in PlantsCell, 121
T. Mackay (2004)
The genetic architecture of quantitative traits: lessons from Drosophila.Current opinion in genetics & development, 14 3
B. Reinhart, F. Slack, F. Slack, M. Basson, A. Pasquinelli, Bettinger Jc, A. Rougvie, H. Horvitz, G. Ruvkun (2000)
The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegansNature, 403
J. Izant, H. Weintraub (1984)
Inhibition of thymidine kinase gene expression by anti-sense RNA: A molecular approach to genetic analysisCell, 36
N. Osato, H. Yamada, Kouji Satoh, H. Ooka, Makoto Yamamoto, Kohji Suzuki, J. Kawai, Piero Carninci, Yasuhiro Ohtomo, K. Murakami, K. Matsubara, S. Kikuchi, Y. Hayashizaki (2003)
Antisense transcripts with rice full-length cDNAsGenome Biology, 5
R. Lu, A. Martín-Hernández, Jack Peart, I. Malcuit, D. Baulcombe (2003)
Virus-induced gene silencing in plants.Methods, 30 4
Ken-ichiro Kobayashi, P. Zambryski (2007)
RNA silencing and its cell-to-cell spread during Arabidopsis embryogenesis.The Plant journal : for cell and molecular biology, 50 4
(2005)
Expression of Arabidopsis MIRNA genes
Dieter Huesken, Joerg Lange, C. Mickanin, J. Weiler, F. Asselbergs, J. Warner, Brian Meloon, Sharon Engel, Avi Rosenberg, D. Cohen, M. Labow, Mischa Reinhardt, F. Natt, Jonathan Hall (2005)
Design of a genome-wide siRNA library using an artificial neural networkNature Biotechnology, 23
Andreas Lingel, B. Simon, E. Izaurralde, M. Sattler (2003)
Structure and nucleic-acid binding of the Drosophila Argonaute 2 PAZ domainNature, 426
A. Reynolds, D. Leake, Q. Boese, S. Scaringe, W. Marshall, A. Khvorova (2004)
Rational siRNA design for RNA interferenceNature Biotechnology, 22
Comprehensive analysis of gene function requires the detailed examination of mutant alleles. In Arabidopsis thaliana, large collections of sequence‐indexed insertion and chemical mutants provide potential loss‐of‐function alleles for most annotated genes. However, limitations for phenotypic analysis include gametophytic or early sporophytic lethality, and the ability to recombine mutant alleles in closely linked genes, especially those present as tandem duplications. Transgene‐mediated gene silencing can overcome some of these shortcomings through tissue‐specific, inducible and partial gene inactivation, or simultaneous targeting of several, sequence‐related genes. In addition, gene silencing is a convenient approach in species or varieties for which exhaustive mutant collections are not yet available. Typically, gene function is reduced post‐transcriptionally, effected by small RNAs that act in a sequence‐specific manner by base pairing to complementary mRNA molecules. A recently introduced approach is the use of artificial microRNAs (amiRNAs). Here, we review various strategies for small RNA‐based gene silencing, and describe in detail the design and application of amiRNAs in many plant species.
The Plant Journal – Wiley
Published: Feb 1, 2008
Keywords: ; ; ; ; ;
Read and print from thousands of top scholarly journals.
Already have an account? Log in
Bookmark this article. You can see your Bookmarks on your DeepDyve Library.
To save an article, log in first, or sign up for a DeepDyve account if you don’t already have one.
Copy and paste the desired citation format or use the link below to download a file formatted for EndNote
Access the full text.
Sign up today, get DeepDyve free for 14 days.
All DeepDyve websites use cookies to improve your online experience. They were placed on your computer when you launched this website. You can change your cookie settings through your browser.