Endogenous targets of RNA‐directed DNA methylation and Pol IV in Arabidopsis

No abstract is available for this paper.

• Publication year

  2006

• Venue

  EMBO Journal

• Publication date

  2006-06-21

• Fields of study

  Biology, Medicine, Environmental Science

• Identifiers
  DOI 10.1038/sj.emboj.7601150PMID 16724114PMCID PMC1500864
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Chromosomal histone modification patterns--from conservation to diversity.

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• A SNF2‐like protein facilitates dynamic control of DNA methylation

  2005influential reference
• The antisense strand of small interfering RNAs directs histone methylation and transcriptional gene silencing in human cells.

  2005cited by this paper
• Atypical RNA polymerase subunits required for RNA-directed DNA methylation

  2005influential reference
• Gardening the genome: DNA methylation in Arabidopsis thaliana

  2005cited by this paper
• Short double-stranded RNA induces transcriptional gene silencing in human cancer cells in the absence of DNA methylation

  2005cited by this paper
• Plant nuclear RNA polymerase IV mediates siRNA and DNA methylation-dependent heterochromatin formation.

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• RNA Polymerase IV Directs Silencing of Endogenous DNA

  2005cited by this paper
• Reinforcement of silencing at transposons and highly repeated sequences requires the concerted action of two distinct RNA polymerases IV in Arabidopsis.

  2005cited by this paper
• Chromatin and siRNA pathways cooperate to maintain DNA methylation of small transposable elements in Arabidopsis

  2005cited by this paper
• The role of the RNAi machinery in heterochromatin formation.

  2005cited by this paper
• Repbase Update, a database of eukaryotic repetitive elements

  2005cited by this paper
• RNAi-mediated pathways in the nucleus

  2005cited by this paper
• Transcriptional gene silencing as a tool for uncovering gene function in maize.

  2005cited by this paper
• Elucidation of the Small RNA Component of the Transcriptome

  2005cited by this paper
• Preventing transcriptional gene silencing by active DNA demethylation

  2005cited by this paper
• siRNA-mediated transcriptional gene silencing: the potential mechanism and a possible role in the histone code

  2005cited by this paper
• Involvement of putative SNF2 chromatin remodeling protein DRD1 in RNA-directed DNA methylation.

  2004influential reference
• Role of transposable elements in heterochromatin and epigenetic control

  2004cited by this paper
• Novel and Stress-Regulated MicroRNAs and Other Small RNAs from Arabidopsis

  2004cited by this paper
• Genomic neighborhoods for Arabidopsis retrotransposons: a role for targeted integration in the distribution of the Metaviridae

  2004cited by this paper
• RNA-directed DNA methylation

  2004cited by this paper
• Genetic analysis of RNA-mediated transcriptional gene silencing.

  2004cited by this paper
• Molecular evolutionary analysis of the widespread piggyBac transposon family and related "domesticated" sequences

  2003cited by this paper
• Distinct Mechanisms Determine Transposon Inheritance and Methylation via Small Interfering RNA and Histone Modification

  2003cited by this paper
• Quantitative cDNA-AFLP analysis for genome-wide expression studies

  2003influential reference
• Transcriptional activation of retrotransposons alters the expression of adjacent genes in wheat

  2003cited by this paper
• RNA-directed DNA methylation in Arabidopsis

  2002cited by this paper
• Lsh, a member of the SNF2 family, is required for genome-wide methylation.

  2001cited by this paper
• RNA-directed transcriptional gene silencing in plants can be inherited independently of the RNA trigger and requires Met1 for maintenance.

  2001cited by this paper
• An RNA-dependent RNA polymerase gene in Arabidopsis is required for posttranscriptional gene silencing mediated by a transgene but not by a virus.

  2000cited by this paper
• Transcriptional silencing and promoter methylation triggered by double‐stranded RNA

  2000cited by this paper
• Production of aberrant promoter transcripts contributes to methylation and silencing of unlinked homologous promoters in trans

  1999cited by this paper
• Maintenance of genomic methylation requires a SWI2/SNF2-like protein

  1999cited by this paper
• Suppression subtractive hybridization: a method for generating differentially regulated or tissue-specific cDNA probes and libraries.

  1996influential reference
• AFLP: a new technique for DNA fingerprinting.

  1995cited by this paper
• Arabidopsis thaliana DNA methylation mutants.

  1993cited by this paper

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• DDM1-Mediated TE Silencing in Plants

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• Epigenetic regulation of plant immunity: from chromatin codes to plant disease resistance

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  2023cites this paper
• Millennia-long epigenetic fluctuations generate intragenic DNA methylation variance in Arabidopsis populations.

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• The MOM1 complex recruits the RdDM machinery via MORC6 to establish de novo DNA methylation

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• Fine mapping and characterization of RLL6 locus required for anti-silencing of a transgene and DNA demethylation in Arabidopsis thaliana

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• Chromatin remodeling factors regulate environmental stress responses in plants.

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  2021cites this paper
• DRD1, a SWI/SNF-like chromatin remodeling protein, regulates a heat-activated transposon in Arabidopsis thaliana.

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  2020cites this paper
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  2020cites this paper
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  2020cites this paper
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  2019cites this paper
• Comparative analysis of epigenetic inhibitors reveals different degrees of interference with transcriptional gene silencing and induction of DNA damage.

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  2019cites this paper
• Active DNA Demethylation in Plants

  2019cites this paper
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  2018cites this paper
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  2018cites this paper
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