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M. Jones-Rhoades, D. Bartel (2004)
Computational identification of plant microRNAs and their targets, including a stress-induced miRNA.Molecular cell, 14 6
R. Mosher, E. Tan, Juhyun Shin, R. Fischer, C. Pikaard, D. Baulcombe (2011)
An Atypical Epigenetic Mechanism Affects Uniparental Expression of Pol IV-Dependent siRNAsPLoS ONE, 6
R. Slotkin, M. Vaughn, F. Borges, M. Tanurdžić, J. Becker, J. Feijó, J. Feijó, R. Martienssen (2009)
Epigenetic Reprogramming and Small RNA Silencing of Transposable Elements in PollenCell, 136
J. Piriyapongsa, I. Jordan (2008)
Dual coding of siRNAs and miRNAs by plant transposable elements.RNA, 14 5
Taiowa Montgomery, M. Howell, Josh Cuperus, Dawei Li, J. Hansen, Amanda Alexander, E. Chapman, N. Fahlgren, E. Allen, J. Carrington (2008)
Specificity of ARGONAUTE7-miR390 Interaction and Dual Functionality in TAS3 Trans-Acting siRNA FormationCell, 133
P. Chellappan, Jing Xia, Xuefeng Zhou, Shang Gao, Xiaoming Zhang, G. Coutiño, Franck Vazquez, Weixiong Zhang, Hailing Jin (2010)
siRNAs from miRNA sites mediate DNA methylation of target genesNucleic Acids Research, 38
B. Meyers, M. Axtell, B. Bartel, D. Bartel, D. Baulcombe, J. Bowman, Xiaofeng Cao, J. Carrington, Xuemei Chen, Pamela Green, S. Griffiths-Jones, S. Jacobsen, Allison Mallory, R. Martienssen, R. Poethig, Y. Qi, H. Vaucheret, O. Voinnet, Yuichiro Watanabe, D. Weigel, Jian‐Kang Zhu (2008)
Criteria for Annotation of Plant MicroRNAsThe Plant Cell Online, 20
N. Breakfield, D. Corcoran, J. Petricka, Jeffrey Shen, Juthamas Sae-Seaw, I. Rubio-Somoza, D. Weigel, U. Ohler, P. Benfey (2012)
High-resolution experimental and computational profiling of tissue-specific known and novel miRNAs in Arabidopsis.Genome research, 22 1
Ho-Ming Chen, Li-Teh Chen, K. Patel, Yi-Hang Li, D. Baulcombe, Shu-Hsing Wu (2010)
22-nucleotide RNAs trigger secondary siRNA biogenesis in plantsProceedings of the National Academy of Sciences, 107
Vianey Olmedo-Monfil, Noé Durán-Figueroa, Mario Arteaga-Vázquez, Edgar Demesa-Arévalo, D. Autran, D. Grimanelli, R. Slotkin, R. Martienssen, Jean-Philippe Vielle-Calzada (2010)
Control of female gamete formation by a small RNA pathway in ArabidopsisNature, 464
J. Pak, A. Fire (2007)
Distinct Populations of Primary and Secondary Effectors During RNAi in C. elegansScience, 315
Liang Wu, Huanyu Zhou, Qingqing Zhang, Jianguang Zhang, Fangrui Ni, Chang Liu, Y. Qi (2010)
DNA methylation mediated by a microRNA pathway.Molecular cell, 38 3
Josh Cuperus, N. Fahlgren, J. Carrington (2011)
Evolution and Functional Diversification of MIRNA GenesPlant Cell, 23
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
Naoyoshi Kumakura, A. Takeda, Y. Fujioka, H. Motose, Ryo Takano, Yuichiro Watanabe (2009)
SGS3 and RDR6 interact and colocalize in cytoplasmic SGS3/RDR6‐bodiesFEBS Letters, 583
Xuemei Chen (2009)
Small RNAs and their roles in plant development.Annual review of cell and developmental biology, 25
R. Mosher, Charles Melnyk (2010)
siRNAs and DNA methylation: seedy epigenetics.Trends in plant science, 15 4
Josh Cuperus, A. Carbonell, N. Fahlgren, H. Garcia-Ruiz, Russell Burke, A. Takeda, C. Sullivan, S. Gilbert, Taiowa Montgomery, J. Carrington (2010)
Unique Functionality of 22 nt miRNAs in Triggering RDR6-Dependent siRNA Biogenesis from Target Transcripts in ArabidopsisNature structural & molecular biology, 17
Celina Juliano, Jianquan Wang, Haifan Lin (2011)
Uniting germline and stem cells: the function of Piwi proteins and the piRNA pathway in diverse organisms.Annual review of genetics, 45
Qingjun Luo, Amandeep Mittal, F. jia, C. Rock (2012)
An autoregulatory feedback loop involving PAP1 and TAS4 in response to sugars in ArabidopsisPlant Molecular Biology, 80
Jie Zong, Xuan Yao, Jinyuan Yin, Dabing Zhang, Hong Ma (2009)
Evolution of the RNA-dependent RNA polymerase (RdRP) genes: duplications and possible losses before and after the divergence of major eukaryotic groups.Gene, 447 1
M. Axtell (2008)
Evolution of microRNAs and their targets: are all microRNAs biologically relevant?Biochimica et biophysica acta, 1779 11
L. Beauclair, Agnès Yu, Nicolas Bouché (2010)
microRNA-directed cleavage and translational repression of the copper chaperone for superoxide dismutase mRNA in Arabidopsis.The Plant journal : for cell and molecular biology, 62 3
Charles Melnyk, A. Molnár, Andrew Bassett, D. Baulcombe (2011)
Mobile 24 nt Small RNAs Direct Transcriptional Gene Silencing in the Root Meristems of Arabidopsis thalianaCurrent Biology, 21
Xuehua Zhong, Christopher Hale, Julie Law, L. Johnson, S. Feng, Andy Tu, S. Jacobsen (2012)
DDR complex facilitates global association of RNA Polymerase V to promoters and evolutionarily young transposonsNature structural & molecular biology, 19
S. Ossowski, R. Schwab, D. Weigel (2008)
Gene silencing in plants using artificial microRNAs and other small RNAs.The Plant journal : for cell and molecular biology, 53 4
Xiaoming Zhang, Jing Xia, Y. Lii, B. Barrera-Figueroa, Xuefeng Zhou, Shang Gao, Lu Lu, Dongdong Niu, Zheng Chen, Christy Leung, Timothy Wong, Huiming Zhang, Jianhua Guo, Yi Li, Renyi Liu, W. Liang, Jian‐Kang Zhu, Weixiong Zhang, Hailing Jin (2012)
Genome-wide analysis of plant nat-siRNAs reveals insights into their distribution, biogenesis and functionGenome Biology, 13
Andrzej Wierzbicki, Ross Cocklin, A. Mayampurath, Ryan Lister, M. Rowley, Brian Gregory, Joseph Ecker, Joseph Ecker, Haixu Tang, C. Pikaard, C. Pikaard (2012)
Spatial and functional relationships among Pol V-associated loci, Pol IV-dependent siRNAs, and cytosine methylation in the Arabidopsis epigenome.Genes & development, 26 16
Wonkeun Park, Junjie Li, R. Song, J. Messing, Xuemei Chen (2002)
CARPEL FACTORY, a Dicer Homolog, and HEN1, a Novel Protein, Act in microRNA Metabolism in Arabidopsis thalianaCurrent Biology, 12
K. Nobuta, Cheng Lu, Roli Shrivastava, Manoj Pillay, E. Paoli, M. Accerbi, M. Arteaga-Vázquez, L. Sidorenko, D. Jeong, Y. Yen, P. Green, V. Chandler, B. Meyers (2008)
Distinct size distribution of endogenous siRNAs in maize: Evidence from deep sequencing in the mop1-1 mutantProceedings of the National Academy of Sciences, 105
N. Fahlgren, Taiowa Montgomery, M. Howell, E. Allen, Sarah Dvorak, Amanda Alexander, J. Carrington (2006)
Regulation of AUXIN RESPONSE FACTOR3 by TAS3 ta-siRNA Affects Developmental Timing and Patterning in ArabidopsisCurrent Biology, 16
F. Felippes, Jia-Wei Wang, D. Weigel (2012)
MIGS: miRNA-induced gene silencing.The Plant journal : for cell and molecular biology, 70 3
Mary Gehring, K. Bubb, S. Henikoff (2009)
Extensive Demethylation of Repetitive Elements During Seed Development Underlies Gene ImprintingScience, 324
L. Alves-Junior, Sandra Niemeier, A. Hauenschild, Marc Rehmsmeier, T. Merkle (2009)
Comprehensive prediction of novel microRNA targets in Arabidopsis thalianaNucleic Acids Research, 37
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[W][OA]The Plant Cell Online, 19
T. Hsieh, Christian Ibarra, Pedro Silva, Assaf Zemach, Leor Eshed-Williams, R. Fischer, Daniel Zilberman (2009)
Genome-Wide Demethylation of Arabidopsis EndospermScience, 324
Joseph Calarco, F. Borges, M. Donoghue, F. Ex, P. Jullien, Telma Lopes, Rui Gardner, F. Berger, J. Feijó, J. Becker, R. Martienssen (2012)
Reprogramming of DNA Methylation in Pollen Guides Epigenetic Inheritance via Small RNACell, 151
P. Dunoyer, C. Brosnan, Grégory Schott, Yu Wang, F. Jay, Abdelmalek Alioua, C. Himber, O. Voinnet (2010)
Retracted: An endogenous, systemic RNAi pathway in plantsThe EMBO Journal, 29
Ericka Havecker, Laura Wallbridge, Thomas Hardcastle, M. Bush, Krystyna Kelly, Ruth Dunn, F. Schwach, J. Doonan, D. Baulcombe (2010)
The Arabidopsis RNA-Directed DNA Methylation Argonautes Functionally Diverge Based on Their Expression and Interaction with Target Loci[W][OA]Plant Cell, 22
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
Chiung-Chih Chu, Wen-Chi Lee, Wen-Yu Guo, S. Pan, Lih-Jen Chen, Hsou-min Li, T. Jinn (2005)
A Copper Chaperone for Superoxide Dismutase That Confers Three Types of Copper/Zinc Superoxide Dismutase Activity in Arabidopsis1Plant Physiology, 139
C. Llave, K. Kasschau, M. Rector, J. Carrington (2002)
Endogenous and Silencing-Associated Small RNAs in Plants Online version contains Web-only data. Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.003210.The Plant Cell Online, 14
O. Voinnet (2009)
Origin, Biogenesis, and Activity of Plant MicroRNAsCell, 136
V. Ambros, B. Bartel, D. Bartel, C. Burge, J. Carrington, Xuemei Chen, G. Dreyfuss, S. Eddy, S. Griffiths-Jones, M. Marshall, M. Matzke, G. Ruvkun, T. Tuschl (2003)
A uniform system for microRNA annotation.RNA, 9 3
N. Fahlgren, S. Jogdeo, K. Kasschau, C. Sullivan, E. Chapman, S. Laubinger, Lisa Smith, Mark Dasenko, S. Givan, D. Weigel, J. Carrington (2010)
MicroRNA Gene Evolution in Arabidopsis lyrata and Arabidopsis thaliana[W][OA]Plant Cell, 22
Christian Ibarra, Xiaoqi Feng, Vera Schoft, T. Hsieh, Rie Uzawa, Jessica Rodrigues, Assaf Zemach, N. Chumak, A. Machlicová, Toshiro Nishimura, Denisse Rojas, R. Fischer, H. Tamaru, Daniel Zilberman (2012)
Active DNA Demethylation in Plant Companion Cells Reinforces Transposon Methylation in GametesScience, 337
M. Todesco, I. Rubio-Somoza, J. Paz-Ares, D. Weigel (2010)
A Collection of Target Mimics for Comprehensive Analysis of MicroRNA Function in Arabidopsis thalianaPLoS Genetics, 6
E. Dolgosheina, Ryan Morin, Gozde Aksay, S. Sahinalp, V. Magrini, E. Mardis, J. Mattsson, P. Unrau (2008)
Conifers have a unique small RNA silencing signature.RNA, 14 8
Cameron Johnson, Anna Kasprzewska, Kristin Tennessen, J. Fernandes, Guo-Ling Nan, V. Walbot, V. Sundaresan, Vicki Vance, L. Bowman (2009)
Clusters and superclusters of phased small RNAs in the developing inflorescence of rice.Genome research, 19 8
J. Banks, T. Nishiyama, M. Hasebe, J. Bowman, M. Gribskov, C. dePamphilis, V. Albert, N. Aono, Tsuyoshi Aoyama, B. Ambrose, N. Ashton, M. Axtell, E. Barker, Michael Barker, J. Bennetzen, Nicholas Bonawitz, C. Chapple, Chaoyang Cheng, L. Corrêa, Michael Dacre, Jeremy DeBarry, I. Dreyer, M. Eliáš, E. Engstrom, M. Estelle, Liang Feng, C. Finet, S. Floyd, W. Frommer, T. Fujita, Lydia Gramzow, Michael Gutensohn, Jesper Harholt, Mitsuru Hattori, A. Heyl, Tadayoshi Hirai, Y. Hiwatashi, M. Ishikawa, Mineko Iwata, K. Karol, B. Koehler, U. Kolukisaoglu, M. Kubo, T. Kurata, S. Lalonde, Kejie Li, Ying Li, A. Litt, E. Lyons, G. Manning, T. Maruyama, T. Michael, K. Mikami, Saori Miyazaki, S. Morinaga, T. Murata, B. Mueller‐Roeber, D. Nelson, Mari Obara, Yasuko Oguri, R. Olmstead, Naoko Onodera, B. Petersen, Birgit Pils, M. Prigge, S. Rensing, D. Riaño-Pachón, A. Roberts, Yoshikatsu Sato, H. Scheller, B. Schulz, C. Schulz, E. Shakirov, N. Shibagaki, Naoki Shinohara, D. Shippen, Iben Sørensen, Ryo Sotooka, Nagisa Sugimoto, M. Sugita, N. Sumikawa, M. Tanurdžić, G. Theißen, P. Ulvskov, S. Wakazuki, J. Weng, W. Willats, D. Wipf, P. Wolf, Lixing Yang, A. Zimmer, Qihui Zhu, T. Mitros, U. Hellsten, D. Loqué, Robert Otillar, A. Salamov, J. Schmutz, H. Shapiro, E. Lindquist, S. Lucas, D. Rokhsar, I. Grigoriev (2011)
The Selaginella Genome Identifies Genetic Changes Associated with the Evolution of Vascular PlantsScience, 332
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
Sergej Djuranovic, A. Nahvi, R. Green (2012)
miRNA-Mediated Gene Silencing by Translational Repression Followed by mRNA Deadenylation and DecayScience, 336
J. Franco-Zorrilla, Adrian Valli, M. Todesco, I. Mateos, María Puga, I. Rubio-Somoza, A. Leyva, D. Weigel, J. García, J. Paz-Ares (2007)
Target mimicry provides a new mechanism for regulation of microRNA activityNature Genetics, 39
M. Todesco, S. Balasubramanian, Jun Cao, Felix Ott, S. Sureshkumar, Korbinian Schneeberger, R. Meyer, T. Altmann, D. Weigel (2012)
Natural Variation in Biogenesis Efficiency of Individual Arabidopsis thaliana MicroRNAsCurrent Biology, 22
A. Eamens, P. Waterhouse (2011)
Vectors and methods for hairpin RNA and artificial microRNA-mediated gene silencing in plants.Methods in molecular biology, 701
U. Chorostecki, Valeria Crosa, A. Lodeyro, Nicolas Bologna, A. Martin, N. Carrillo, C. Schommer, J. Palatnik (2012)
Identification of new microRNA-regulated genes by conserved targeting in plant speciesNucleic Acids Research, 40
P. Shivaprasad, Ho-Ming Chen, K. Patel, Donna Bond, B. Santos, D. Baulcombe (2012)
A MicroRNA Superfamily Regulates Nucleotide Binding Site–Leucine-Rich Repeats and Other mRNAs[W][OA]Plant Cell, 24
Feng Li, D. Pignatta, Claire Bendix, Jacob Brunkard, M. Cohn, J. Tung, Haoyu Sun, Pavan Kumar, B. Baker (2012)
MicroRNA regulation of plant innate immune receptorsProceedings of the National Academy of Sciences, 109
Surekha Katiyar-Agarwal, Shang Gao, A. Vivian-Smith, Hailing Jin (2007)
A novel class of bacteria-induced small RNAs in Arabidopsis.Genes & development, 21 23
M. Tanurdžić, Matthew Vaughn, Hongmei Jiang, Tae-Jin Lee, R. Slotkin, B. Sosinski, William Thompson, R. Doerge, R. Martienssen (2008)
Epigenomic Consequences of Immortalized Plant Cell Suspension CulturePLoS Biology, 6
Zhaorong Ma, C. Coruh, M. Axtell (2010)
Arabidopsis lyrata Small RNAs: Transient MIRNA and Small Interfering RNA Loci within the Arabidopsis Genus[W][OA]Plant Cell, 22
R. Rajagopalan, H. Vaucheret, Jerry Trejo, D. Bartel (2006)
A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana.Genes & development, 20 24
M. Axtell, Calvin Jan, R. Rajagopalan, D. Bartel (2006)
A Two-Hit Trigger for siRNA Biogenesis in PlantsCell, 127
Mali Talmor-Neiman, R. Stav, Liron Klipcan, K. Buxdorf, D. Baulcombe, T. Arazi (2006)
Identification of trans-acting siRNAs in moss and an RNA-dependent RNA polymerase required for their biogenesis.The Plant journal : for cell and molecular biology, 48 4
K. Buxdorf, Anat Hendelman, R. Stav, M. Lapidot, N. Ori, T. Arazi (2010)
Identification and characterization of a novel miR159 target not related to MYB in tomatoPlanta, 232
R. Mosher, F. Schwach, D. Studholme, D. Baulcombe (2008)
PolIVb influences RNA-directed DNA methylation independently of its role in siRNA biogenesisProceedings of the National Academy of Sciences, 105
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
P. Manavella, Daniel Koenig, D. Weigel (2012)
Plant secondary siRNA production determined by microRNA-duplex structureProceedings of the National Academy of Sciences, 109
Ruiqiang Ye, Wei Wang, Taichiro Iki, Chang-Nong Liu, Yang Wu, M. Ishikawa, Xue-ping Zhou, Y. Qi (2012)
Cytoplasmic assembly and selective nuclear import of Arabidopsis Argonaute4/siRNA complexes.Molecular cell, 46 6
M. Ron, Monica Saez, Leor Williams, J. Fletcher, S. McCormick (2010)
Proper regulation of a sperm-specific cis-nat-siRNA is essential for double fertilization in Arabidopsis.Genes & development, 24 10
J. Zhai, D. Jeong, E. Paoli, Sunhee Park, B. Rosen, Yupeng Li, Alvaro González, Zhe Yan, S. Kitto, M. Grusak, S. Jackson, G. Stacey, D. Cook, P. Green, D. Sherrier, B. Meyers (2011)
MicroRNAs as master regulators of the plant NB-LRR defense gene family via the production of phased, trans-acting siRNAs.Genes & development, 25 23
J. Debernardi, R. Rodriguez, M. Mecchia, J. Palatnik (2012)
Functional Specialization of the Plant miR396 Regulatory Network through Distinct MicroRNA–Target InteractionsPLoS Genetics, 8
M. Matzke, T. Kanno, L. Daxinger, B. Huettel, A. Matzke (2009)
RNA-mediated chromatin-based silencing in plants.Current opinion in cell biology, 21 3
R. Margis, A. Fusaro, Neil Smith, Shaun Curtin, J. Watson, E. Finnegan, P. Waterhouse (2006)
The evolution and diversification of Dicers in plantsFEBS Letters, 580
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
Cheng Lu, K. Kulkarni, F. Souret, Ramesh MuthuValliappan, Shivakundan Tej, R. Poethig, I. Henderson, S. Jacobsen, Wenzhong Wang, P. Green, B. Meyers (2006)
MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant.Genome research, 16 10
Huili Guo, Nicholas Ingolia, J. Weissman, D. Bartel (2010)
Mammalian microRNAs predominantly act to decrease target mRNA levelsNature, 466
Xianwei Song, Pingchuan Li, J. Zhai, Ming Zhou, Lijia Ma, B. Liu, D. Jeong, Mayumi Nakano, S. Cao, Chunyan Liu, Chengcai Chu, Xiu-Jie Wang, P. Green, B. Meyers, Xiaofeng Cao (2012)
Roles of DCL4 and DCL3b in rice phased small RNA biogenesis.The Plant journal : for cell and molecular biology, 69 3
Ning Bao, Khar-Wai Lye, M. Barton (2004)
MicroRNA binding sites in Arabidopsis class III HD-ZIP mRNAs are required for methylation of the template chromosome.Developmental cell, 7 5
A. Carbonell, N. Fahlgren, H. Garcia-Ruiz, K. Gilbert, Taiowa Montgomery, Tammy Nguyen, Josh Cuperus, J. Carrington (2012)
Functional Analysis of Three Arabidopsis ARGONAUTES Using Slicer-Defective Mutants[W][OA]Plant Cell, 24
Ryan Morin, Gozde Aksay, E. Dolgosheina, H. Ebhardt, V. Magrini, E. Mardis, S. Sahinalp, P. Unrau (2008)
Comparative analysis of the small RNA transcriptomes of Pinus contorta and Oryza sativa.Genome research, 18 4
A. Bazzini, Miler Lee, Antonio Giráldez (2012)
Ribosome Profiling Shows That miR-430 Reduces Translation Before Causing mRNA Decay in ZebrafishScience, 336
Franck Vazquez, Todd Blevins, Jérôme Ailhas, T. Boller, F. Meins (2008)
Evolution of Arabidopsis MIR genes generates novel microRNA classesNucleic Acids Research, 36
N. Fahlgren, J. Carrington (2010)
miRNA Target Prediction in Plants.Methods in molecular biology, 592
M. Rhoades, B. Reinhart, Lee Lim, C. Burge, B. Bartel, D. Bartel (2002)
Prediction of Plant MicroRNA TargetsCell, 110
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
Basel Khraiwesh, M. Arif, Gotelinde Seumel, S. Ossowski, D. Weigel, R. Reski, W. Frank (2010)
Transcriptional Control of Gene Expression by MicroRNAsCell, 140
A. Herr, A. Molnár, Alexandra Jones, D. Baulcombe (2006)
Inaugural Article: Defective RNA processing enhances RNA silencing and influences flowering of ArabidopsisProceedings of the National Academy of Sciences of the United States of America
L. Yang, Gang Wu, R. Poethig (2011)
Mutations in the GW-repeat protein SUO reveal a developmental function for microRNA-mediated translational repression in ArabidopsisProceedings of the National Academy of Sciences, 109
Yvonne Tay, L. Kats, L. Salmena, Dror Weiss, S. Tan, U. Ala, F. Karreth, L. Poliseno, P. Provero, F. Cunto, J. Lieberman, I. Rigoutsos, P. Pandolfi (2011)
Coding-Independent Regulation of the Tumor Suppressor PTEN by Competing Endogenous mRNAsCell, 147
Diana Dugas, B. Bartel (2008)
Sucrose induction of Arabidopsis miR398 represses two Cu/Zn superoxide dismutasesPlant Molecular Biology, 67
D. Bartel (2004)
MicroRNAs Genomics, Biogenesis, Mechanism, and FunctionCell, 116
C. Shin, Jin-Wu Nam, K. Farh, H. Chiang, Alena Shkumatava, D. Bartel (2010)
Expanding the microRNA targeting code: functional sites with centered pairing.Molecular cell, 38 6
Virginie Jouannet, A. Moreno, T. Elmayan, H. Vaucheret, M. Crespi, A. Maizel (2012)
Cytoplasmic Arabidopsis AGO7 accumulates in membrane‐associated siRNA bodies and is required for ta‐siRNA biogenesisThe EMBO Journal, 31
D. Bartel (2009)
MicroRNAs: Target Recognition and Regulatory FunctionsCell, 136
M. Yoshikawa, A. Peragine, M. Park, R. Poethig (2005)
A pathway for the biogenesis of trans-acting siRNAs in Arabidopsis.Genes & development, 19 18
A. Fusaro, L. Matthew, N. Smith, Shaun Curtin, Jasmina Dedic‐Hagan, Geoff Ellacott, J. Watson, Ming-Bo Wang, C. Brosnan, B. Carroll, P. Waterhouse (2006)
RNA interference‐inducing hairpin RNAs in plants act through the viral defence pathwayEMBO reports, 7
Y. Qi, Xingyue He, Xiu-Jie Wang, O. Kohany, J. Jurka, G. Hannon (2006)
Distinct catalytic and non-catalytic roles of ARGONAUTE4 in RNA-directed DNA methylationNature, 443
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
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
D. Chitwood, M. Guo, F. Nogueira, M. Timmermans (2007)
Establishing leaf polarity: the role of small RNAs and positional signals in the shoot apex, 134
Hailing Jin, V. Vacic, T. Girke, S. Lonardi, Jian‐Kang Zhu (2008)
BMC Small RNAs and the regulation of cis-natural antisense transcripts in Arabidopsis
S. Cho, Charles Addo-Quaye, C. Coruh, M. Arif, Zhaorong Ma, W. Frank, M. Axtell, S. Dutcher (2008)
Physcomitrella patens DCL3 Is Required for 22–24 nt siRNA Accumulation, Suppression of Retrotransposon-Derived Transcripts, and Normal DevelopmentPLoS Genetics, 4
P. Brodersen, Lali Sakvarelidze-Achard, M. Bruun-Rasmussen, P. Dunoyer, Yoshiharu Yamamoto, L. Sieburth, O. Voinnet (2008)
Widespread Translational Inhibition by Plant miRNAs and siRNAsScience, 320
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
Virginia Ruiz-Ferrer, O. Voinnet (2009)
Roles of plant small RNAs in biotic stress responses.Annual review of plant biology, 60
M. Jones-Rhoades (2012)
Conservation and divergence in plant microRNAsPlant Molecular Biology, 80
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
Liang Wu, Long Mao, Y. Qi (2012)
Roles of DICER-LIKE and ARGONAUTE Proteins in TAS-Derived Small Interfering RNA-Triggered DNA Methylation1[W]Plant Physiology, 160
Xuemei Chen (2004)
A MicroRNA as a Translational Repressor of APETALA2 in Arabidopsis Flower DevelopmentScience, 303
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
Julie Law, S. Jacobsen (2010)
Establishing, maintaining and modifying DNA methylation patterns in plants and animalsNature Reviews Genetics, 11
E. Allen, Zhixin Xie, Adam Gustafson, J. Carrington (2005)
microRNA-Directed Phasing during Trans-Acting siRNA Biogenesis in PlantsCell, 121
D. Lisch, J. Bennetzen (2011)
Transposable element origins of epigenetic gene regulation.Current opinion in plant biology, 14 2
Andrea McCue, Saivageethi Nuthikattu, S. Reeder, R. Slotkin (2012)
Gene Expression and Stress Response Mediated by the Epigenetic Regulation of a Transposable Element Small RNAPLoS Genetics, 8
I. Henderson, Xiaoyu Zhang, Cheng Lu, L. Johnson, B. Meyers, P. Green, S. Jacobsen (2006)
Dissecting Arabidopsis thaliana DICER function in small RNA processing, gene silencing and DNA methylation patterningNature Genetics, 38
Jun Yan, Yiyou Gu, Xiaoyun Jia, Wenjun Kang, Shangjin Pan, Xiaoqing Tang, Xuemei Chen, G. Tang (2012)
Effective Small RNA Destruction by the Expression of a Short Tandem Target Mimic in Arabidopsis[C][W]Plant Cell, 24
Julie Law, Israel Ausín, L. Johnson, A. Vashisht, Jian‐Kang Zhu, J. Wohlschlegel, S. Jacobsen (2010)
A Protein Complex Required for Polymerase V Transcripts and RNA- Directed DNA Methylation in ArabidopsisCurrent Biology, 20
M. Willmann, Matthew Endres, R. Cook, B. Gregory (2011)
The Functions of RNA-Dependent RNA Polymerases in Arabidopsis, 2011
G. Tang, B. Reinhart, D. Bartel, P. Zamore (2003)
A biochemical framework for RNA silencing in plants.Genes & development, 17 1
Guillaume Moissiard, E. Parizotto, C. Himber, O. Voinnet (2016)
Transitivity in Arabidopsis can be primed, requires the redundant action of the antiviral Dicer-like 4 and Dicer-like 2, and is compromised by viral-encoded suppressor proteins.RNA, 13 8
R. Mosher, Charles Melnyk, Krystyna Kelly, Ruth Dunn, D. Studholme, D. Baulcombe (2009)
Uniparental expression of PolIV-dependent siRNAs in developing endosperm of ArabidopsisNature, 460
Regulatory small RNAs, which range in size from 20 to 24 nucleotides, are ubiquitous components of endogenous plant transcriptomes, as well as common responses to exogenous viral infections and introduced double-stranded RNA (dsRNA). Endogenous small RNAs derive from the processing of helical RNA precursors and can be categorized into several groups based on differences in biogenesis and function. A major distinction can be observed between small RNAs derived from single-stranded precursors with a hairpin structure (referred to here as hairpin RNAs (hpRNAs)) and those derived from dsRNA precursors (small interfering RNAs (siRNAs)). hpRNAs in plants can be divided into two secondary groups: microRNAs and those that are not microRNAs. The currently known siRNAs fall mostly into one of three secondary groups: heterochromatic siRNAs, secondary siRNAs, and natural antisense transcript siRNAs. Tertiary subdivisions can be identified within many of the secondary classifications as well. Comparisons between the different classes of plant small RNAs help to illuminate key goals for future research.
Annual Review of Plant Biology – Annual Reviews
Published: Apr 29, 2013
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