RNA-dependent RNA polymerase 1 in potato (Solanum tuberosum) and its relationship to other plant RNA-dependent RNA polymerases

[1]  Mathew G. Lewsey,et al.  Salicylic acid treatment and expression of an RNA-dependent RNA polymerase 1 transgene inhibit lethal symptoms and meristem invasion during tobacco mosaic virus infection in Nicotiana benthamiana , 2016, BMC Plant Biology.

[2]  Hua Li,et al.  Differential Responses to Virus Challenge of Laboratory and Wild Accessions of Australian Species of Nicotiana, and Comparative Analysis of RDR1 Gene Sequences , 2015, PloS one.

[3]  A. Rotter,et al.  Potato virus Y infection hinders potato defence response and renders plants more vulnerable to Colorado potato beetle attack , 2014, Molecular ecology.

[4]  R. Visser,et al.  Tomato yellow leaf curl virus resistance by Ty-1 involves increased cytosine methylation of viral genomes and is compromised by cucumber mosaic virus infection , 2014, Proceedings of the National Academy of Sciences.

[5]  Kristina Gruden,et al.  GoMapMan: integration, consolidation and visualization of plant gene annotations within the MapMan ontology , 2013, Nucleic Acids Res..

[6]  X. Xia,et al.  The Role of Hydrogen Peroxide and Nitric Oxide in the Induction of Plant-Encoded RNA-Dependent RNA Polymerase 1 in the Basal Defense against Tobacco Mosaic Virus , 2013, PloS one.

[7]  P. Palukaitis,et al.  Regulation of RNA-Dependent RNA Polymerase 1 and Isochorismate Synthase Gene Expression in Arabidopsis , 2013, PloS one.

[8]  Chunyi Zhang,et al.  Expressional and regulatory characterization of Arabidopsis RNA-dependent RNA polymerase 1 , 2013, Planta.

[9]  Jeremy D. Edwards,et al.  The Tomato Yellow Leaf Curl Virus Resistance Genes Ty-1 and Ty-3 Are Allelic and Code for DFDGD-Class RNA–Dependent RNA Polymerases , 2013, PLoS genetics.

[10]  L. Paša-Tolić,et al.  In Vitro Transcription Activities of Pol Iv, Pol V, and Rdr2 Reveal Coupling of Pol Iv and Rdr2 for Dsrna Synthesis in Plant Rna Silencing , 2022 .

[11]  P. Palukaitis.  Resistance to Viruses of Potato and their Vectors , 2012 .

[12]  Daniel W. A. Buchan,et al.  The tomato genome sequence provides insights into fleshy fruit evolution , 2012, Nature.

[13]  Changai Wu,et al.  Characterization and functional analysis of GhRDR6, a novel RDR6 gene from cotton (Gossypium hirsutum L.). , 2012, Bioscience reports.

[14]  Yi Li,et al.  RNA-dependent RNA polymerase 6 of rice (Oryza sativa) plays role in host defense against negative-strand RNA virus, Rice stripe virus. , 2012, Virus research.

[15]  David M. Goodstein,et al.  Phytozome: a comparative platform for green plant genomics , 2011, Nucleic Acids Res..

[16]  David M. A. Martin,et al.  Genome sequence and analysis of the tuber crop potato , 2011, Nature.

[17]  Mathew G. Lewsey,et al.  An Antiviral Defense Role of AGO2 in Plants , 2011, PloS one.

[18]  J. Carr,et al.  Genetic modification of alternative respiration in Nicotiana benthamiana affects basal and salicylic acid-induced resistance to potato virus X , 2011, BMC Plant Biology.

[19]  Zheng Gao,et al.  Isolation of a novel RNA-dependent RNA polymerase 6 from Nicotiana glutinosa, NgRDR6, and analysis of its response to biotic and abiotic stresses , 2011, Molecular Biology Reports.

[20]  B. Sosinski,et al.  Comparative genomic sequence analysis of strawberry and other rosids reveals significant microsynteny , 2010, BMC Research Notes.

[21]  Yoshikazu Tanaka,et al.  Analysis of rice RNA-dependent RNA polymerase 1 (OsRDR1) in virus-mediated RNA silencing after particle bombardment , 2010, Journal of General Plant Pathology.

[22]  Thomas J. Hardcastle,et al.  The Arabidopsis RNA-Directed DNA Methylation Argonautes Functionally Diverge Based on Their Expression and Interaction with Target Loci[W][OA] , 2010, Plant Cell.

[23]  C. Sullivan,et al.  Arabidopsis RNA-Dependent RNA Polymerases and Dicer-Like Proteins in Antiviral Defense and Small Interfering RNA Biogenesis during Turnip Mosaic Virus Infection[W][OA] , 2010, Plant Cell.

[24]  Soo-Hwan Kim,et al.  Auxin regulation of the microRNA390-dependent transacting small interfering RNA pathway in Arabidopsis lateral root development , 2009, Nucleic acids research.

[25]  Guoying Wang,et al.  Isolation, expression and functional analysis of a putative RNA-dependent RNA polymerase gene from maize (Zea mays L.) , 2010, Molecular Biology Reports.

[26]  Xuemei Chen,et al.  RNAi-mediated viral immunity requires amplification of virus-derived siRNAs in Arabidopsis thaliana , 2009, Proceedings of the National Academy of Sciences.

[27]  A. Gisel,et al.  RNA-Dependent RNA Polymerase 6 Delays Accumulation and Precludes Meristem Invasion of a Viroid That Replicates in the Nucleus , 2009, Journal of Virology.

[28]  Hong Ma,et al.  Evolution of the RNA-dependent RNA polymerase (RdRP) genes: duplications and possible losses before and after the divergence of major eukaryotic groups. , 2009, Gene.

[29]  P. Schnable,et al.  Loss of RNA–Dependent RNA Polymerase 2 (RDR2) Function Causes Widespread and Unexpected Changes in the Expression of Transposons, Genes, and 24-nt Small RNAs , 2009, PLoS genetics.

[30]  A. Gisel,et al.  Deep Sequencing of the Small RNAs Derived from Two Symptomatic Variants of a Chloroplastic Viroid: Implications for Their Genesis and for Pathogenesis , 2009, PloS one.

[31]  P. Palukaitis,et al.  The influence of RNA-dependent RNA polymerase 1 on potato virus Y infection and on other antiviral response genes. , 2009, Molecular plant-microbe interactions : MPMI.

[32]  J. Stephens,et al.  Identification and characterization of barley RNA-directed RNA polymerases. , 2009, Biochimica et biophysica acta.

[33]  Xingqi Guo,et al.  NgRDR1, an RNA-dependent RNA polymerase isolated from Nicotiana glutinosa, was involved in biotic and abiotic stresses. , 2009, Plant physiology and biochemistry : PPB.

[34]  F. S. Bao,et al.  Small RNA Deep Sequencing Reveals Role for Arabidopsis thaliana RNA-Dependent RNA Polymerases in Viral siRNA Biogenesis , 2009, PloS one.

[35]  A. Kamei,et al.  Identification of miniature inverted-repeat transposable elements (MITEs) and biogenesis of their siRNAs in the Solanaceae: new functional implications for MITEs. , 2008, Genome research.

[36]  F. Vaistij,et al.  Compromised Virus-Induced Gene Silencing in , 2009 .

[37]  T. Csorba,et al.  RNA silencing: an antiviral mechanism. , 2009, Advances in virus research.

[38]  Ji Hoon Ahn,et al.  AGO1-miR173 complex initiates phased siRNA formation in plants , 2008, Proceedings of the National Academy of Sciences.

[39]  Kan Nobuta,et al.  Distinct size distribution of endogenous siRNAs in maize: Evidence from deep sequencing in the mop1-1 mutant , 2008, Proceedings of the National Academy of Sciences.

[40]  F. Qu,et al.  Arabidopsis DRB4, AGO1, AGO7, and RDR6 participate in a DCL4-initiated antiviral RNA silencing pathway negatively regulated by DCL1 , 2008, Proceedings of the National Academy of Sciences.

[41]  Germán Martínez,et al.  Viroid-Induced Symptoms in Nicotiana benthamiana Plants Are Dependent on RDR6 Activity1[C][W] , 2008, Plant Physiology.

[42]  I. Baldwin,et al.  Silencing RNA-directed RNA polymerase 2 increases the susceptibility of Nicotiana attenuata to UV in the field and in the glasshouse. , 2008, The Plant journal : for cell and molecular biology.

[43]  I. Baldwin,et al.  RNA-Directed RNA Polymerase3 from Nicotiana attenuata Is Required for Competitive Growth in Natural Environments1[W][OA] , 2008, Plant Physiology.

[44]  James C. Carrington,et al.  Specificity of ARGONAUTE7-miR390 Interaction and Dual Functionality in TAS3 Trans-Acting siRNA Formation , 2008, Cell.

[45]  I. Baldwin,et al.  Herbivory-induced changes in the small-RNA transcriptome and phytohormone signaling in Nicotiana attenuata , 2008, Proceedings of the National Academy of Sciences.

[46]  C. Llave,et al.  Structural and Genetic Requirements for the Biogenesis of Tobacco Rattle Virus-Derived Small Interfering RNAs , 2008, Journal of Virology.

[47]  E. K. Yoon,et al.  Phytohormone abscisic acid control RNA-dependent RNA polymerase 6 gene expression and post-transcriptional gene silencing in rice cells , 2007, Nucleic acids research.

[48]  A. Rambaut,et al.  BEAST: Bayesian evolutionary analysis by sampling trees , 2007, BMC Evolutionary Biology.

[49]  N. Mitter,et al.  Nuclear gene silencing directs reception of long-distance mRNA silencing in Arabidopsis , 2007, Proceedings of the National Academy of Sciences.

[50]  S. Ding,et al.  Suppression of Antiviral Silencing by Cucumber Mosaic Virus 2b Protein in Arabidopsis Is Associated with Drastically Reduced Accumulation of Three Classes of Viral Small Interfering RNAs[W][OA] , 2007, The Plant Cell Online.

[51]  D. Baulcombe,et al.  An SNF2 Protein Associated with Nuclear RNA Silencing and the Spread of a Silencing Signal between Cells in Arabidopsis[W][OA] , 2007, The Plant Cell Online.

[52]  I. Baldwin,et al.  RNA-directed RNA polymerase 1 (RdR1) mediates the resistance of Nicotiana attenuata to herbivore attack in nature. , 2007, The Plant journal : for cell and molecular biology.

[53]  Jason S. Cumbie,et al.  Genome-Wide Profiling and Analysis of Arabidopsis siRNAs , 2007, PLoS biology.

[54]  Hailing Jin,et al.  A pathogen-inducible endogenous siRNA in plant immunity , 2006, Proceedings of the National Academy of Sciences.

[55]  David C Baulcombe,et al.  Identification of trans-acting siRNAs in moss and an RNA-dependent RNA polymerase required for their biogenesis. , 2006, The Plant journal : for cell and molecular biology.

[56]  J. Jurka,et al.  Distinct catalytic and non-catalytic roles of ARGONAUTE4 in RNA-directed DNA methylation , 2006, Nature.

[57]  Shivakundan Singh Tej,et al.  MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant. , 2006, Genome research.

[58]  Gang Wu,et al.  Temporal regulation of shoot development in Arabidopsis thaliana by miR156 and its target SPL3 , 2006, Development.

[59]  S. Jacobsen,et al.  The Arabidopsis Chromatin-Modifying Nuclear siRNA Pathway Involves a Nucleolar RNA Processing Center , 2006, Cell.

[60]  R. Poethig,et al.  Genetic interaction between the AS1-AS2 and RDR6-SGS3-AGO7 pathways for leaf morphogenesis. , 2006, Plant & cell physiology.

[61]  Gail M Preston,et al.  Quantitative in situ assay of salicylic acid in tobacco leaves using a genetically modified biosensor strain of Acinetobacter sp. ADP1. , 2006, The Plant journal : for cell and molecular biology.

[62]  J. Carrington,et al.  Regulation of AUXIN RESPONSE FACTOR3 by TAS3 ta-siRNA Affects Developmental Timing and Patterning in Arabidopsis , 2006, Current Biology.

[63]  M. Wassenegger,et al.  Nomenclature and functions of RNA-directed RNA polymerases. , 2006, Trends in plant science.

[64]  H. Barker,et al.  Resistance to Viruses in Potato , 2006 .

[65]  O. Borsani,et al.  Endogenous siRNAs Derived from a Pair of Natural cis-Antisense Transcripts Regulate Salt Tolerance in Arabidopsis , 2005, Cell.

[66]  Xiaohong Ye,et al.  RDR6 Has a Broad-Spectrum but Temperature-Dependent Antiviral Defense Role in Nicotiana benthamiana , 2005, Journal of Virology.

[67]  Xuemei Chen,et al.  Methylation Protects miRNAs and siRNAs from a 3′-End Uridylation Activity in Arabidopsis , 2005, Current Biology.

[68]  Frank Schwach,et al.  An RNA-Dependent RNA Polymerase Prevents Meristem Invasion by Potato Virus X and Is Required for the Activity But Not the Production of a Systemic Silencing Signal1[w] , 2005, Plant Physiology.

[69]  Hai Huang,et al.  The Putative RNA-Dependent RNA Polymerase RDR6 Acts Synergistically with ASYMMETRIC LEAVES1 and 2 to Repress BREVIPEDICELLUS and MicroRNA165/166 in Arabidopsis Leaf Developmentw⃞ , 2005, The Plant Cell Online.

[70]  É. Várallyay,et al.  Plant Virus-Derived Small Interfering RNAs Originate Predominantly from Highly Structured Single-Stranded Viral RNAs , 2005, Journal of Virology.

[71]  D. Baulcombe,et al.  An RNA-Dependent RNA Polymerase Prevents Meristem Invasion by Potato Virus X and Is Required for the Activity But Not the Production of a Systemic Silencing Signal , 2005 .

[72]  Franck Vazquez,et al.  Endogenous trans-acting siRNAs regulate the accumulation of Arabidopsis mRNAs. , 2004, Molecular cell.

[73]  Gang Wu,et al.  SGS3 and SGS2/SDE1/RDR6 are required for juvenile development and the production of trans-acting siRNAs in Arabidopsis. , 2004, Genes & development.

[74]  H. Vaucheret,et al.  Geminivirus VIGS of endogenous genes requires SGS2/SDE1 and SGS3 and defines a new branch in the genetic pathway for silencing in plants. , 2004, The Plant journal : for cell and molecular biology.

[75]  Franck Vazquez,et al.  The action of ARGONAUTE1 in the miRNA pathway and its regulation by the miRNA pathway are crucial for plant development. , 2004, Genes & development.

[76]  Richard S Nelson,et al.  A natural variant of a host RNA-dependent RNA polymerase is associated with increased susceptibility to viruses by Nicotiana benthamiana. , 2004, Proceedings of the National Academy of Sciences of the United States of America.

[77]  Adam M. Gustafson,et al.  Genetic and Functional Diversification of Small RNA Pathways in Plants , 2004, PLoS biology.

[78]  Anders Gorm Pedersen,et al.  RevTrans: multiple alignment of coding DNA from aligned amino acid sequences , 2003, Nucleic Acids Res..

[79]  Diqiu Yu,et al.  Analysis of the involvement of an inducible Arabidopsis RNA-dependent RNA polymerase in antiviral defense. , 2003, Molecular plant-microbe interactions : MPMI.

[80]  K. Katoh,et al.  MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. , 2002, Nucleic acids research.

[81]  Dirk Inzé,et al.  GATEWAY vectors for Agrobacterium-mediated plant transformation. , 2002, Trends in plant science.

[82]  D. Baulcombe,et al.  Spreading of RNA Targeting and DNA Methylation in RNA Silencing Requires Transcription of the Target Gene and a Putative RNA-Dependent RNA Polymerase Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.010480. , 2002, The Plant Cell Online.

[83]  A. Caudy,et al.  Argonaute2, a Link Between Genetic and Biochemical Analyses of RNAi , 2001, Science.

[84]  B. Fan,et al.  An important role of an inducible RNA-dependent RNA polymerase in plant antiviral defense , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[85]  H. Vaucheret,et al.  AGO1, QDE-2, and RDE-1 are related proteins required for post-transcriptional gene silencing in plants, quelling in fungi, and RNA interference in animals. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[86]  Tamas Dalmay,et al.  An RNA-Dependent RNA Polymerase Gene in Arabidopsis Is Required for Posttranscriptional Gene Silencing Mediated by a Transgene but Not by a Virus , 2000, Cell.

[87]  Philippe Mourrain,et al.  Arabidopsis SGS2 and SGS3 Genes Are Required for Posttranscriptional Gene Silencing and Natural Virus Resistance , 2000, Cell.

[88]  J. Spoerke,et al.  EGO-1 is related to RNA-directed RNA polymerase and functions in germ-line development and RNA interference in C. elegans , 2000, Current Biology.

[89]  J. Spoerke,et al.  EGO-1 is related to RNA-directed RNA polymerase and functions in germ-line development and RNA interference in C. elegans , 2000, Current Biology.

[90]  G. Macino,et al.  Gene silencing in Neurospora crassa requires a protein homologous to RNA-dependent RNA polymerase , 1999, Nature.

[91]  H. L. Sänger,et al.  Isolation of an RNA-Directed RNA Polymerase–Specific cDNA Clone from Tomato , 1998, Plant Cell.

[92]  D. Baulcombe,et al.  A Potato Virus X Resistance Gene Mediates an Induced, Nonspecific Resistance in Protoplasts. , 1993, The Plant cell.

[93]  H. L. Sänger,et al.  RNA-directed RNA polymerase from tomato leaves. II. Catalytic in vitro properties. , 1993, The Journal of biological chemistry.

[94]  D F Klessig,et al.  Salicylic Acid: A Likely Endogenous Signal in the Resistance Response of Tobacco to Viral Infection , 1990, Science.

[95]  E. Myers,et al.  Basic local alignment search tool. , 1990, Journal of molecular biology.

[96]  J. Sambrook,et al.  Molecular Cloning: A Laboratory Manual , 2001 .

[97]  Roger A. C. Jones.  Breakdown of potato virus X resistance gene NX: selection of a group four strain from strain group three , 1982 .

[98]  E. Pahlich,et al.  A rapid DNA isolation procedure for small quantities of fresh leaf tissue , 1980 .