siRNA-mediated DNA methylation and H3K9 dimethylation in plants

Polymerase IV occupancy at RNA-directed DNA methylation sites requires SHH1

(2013) Julie A. Law et al.   NATURE

DTF1 is a core component of RNA-directed DNA methylation and may assist in the recruitment of Pol IV

(2013) H. Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dual Binding of Chromomethylase Domains to H3K9me2-Containing Nucleosomes Directs DNA Methylation in Plants

(2012) Jiamu Du et al.   CELL

Involvement of a GHKL ATPase in RNA-Directed DNA Methylation in Arabidopsis thaliana

(2012) Zdravko J. Lorković et al.   CURRENT BIOLOGY

IDN2 has a role downstream of siRNA formation in RNA-directed DNA methylation

(2012) Andreas Finke et al.   Epigenetics

RNA polymerase V-dependent small RNAs in Arabidopsis originate from small, intergenic loci including most SINE repeats

(2012) Tzuu-fen Lee et al.   Epigenetics

Spatial and functional relationships among Pol V-associated loci, Pol IV-dependent siRNAs, and cytosine methylation in the Arabidopsis epigenome

(2012) A. T. Wierzbicki et al.   GENES & DEVELOPMENT

Cytoplasmic Assembly and Selective Nuclear Import of Arabidopsis ARGONAUTE4/siRNA Complexes

(2012) Ruiqiang Ye et al.   MOLECULAR CELL

IBM1, a JmjC domain-containing histone demethylase, is involved in the regulation of RNA-directed DNA methylation through the epigenetic control of RDR2 and DCL3 expression in Arabidopsis

(2012) Di Fan et al.   NUCLEIC ACIDS RESEARCH

A Histone Acetyltransferase Regulates Active DNA Demethylation in Arabidopsis

(2012) W. Qian et al.   SCIENCE

IDN2 and Its Paralogs Form a Complex Required for RNA–Directed DNA Methylation

(2012) Cui-Jun Zhang et al.   PLoS Genetics

Body-Methylated Genes in Arabidopsis thaliana Are Functionally Important and Evolve Slowly

(2011) S. Takuno et al.   MOLECULAR BIOLOGY AND EVOLUTION

Histone Methylation in Higher Plants

(2010) Chunyan Liu et al.   Annual Review of Plant Biology

Differentiation of epigenetic modifications between transposons and genes

(2010) Hidetoshi Saze et al.   CURRENT OPINION IN PLANT BIOLOGY

Autocatalytic differentiation of epigenetic modifications within the Arabidopsis genome

(2010) Soichi Inagaki et al.   EMBO JOURNAL

Control of genic DNA methylation in Arabidopsis

(2010) Soichi Inagaki et al.   JOURNAL OF PLANT RESEARCH

An RNA polymerase II- and AGO4-associated protein acts in RNA-directed DNA methylation

(2010) Zhihuan Gao et al.   NATURE

Establishing, maintaining and modifying DNA methylation patterns in plants and animals

(2010) Julie A. Law et al.   NATURE REVIEWS GENETICS

The Arabidopsis RNA-Directed DNA Methylation Argonautes Functionally Diverge Based on Their Expression and Interaction with Target Loci

(2010) E. R. Havecker et al.   PLANT CELL

Fast signals and slow marks: the dynamics of histone modifications

(2010) Teresa K. Barth et al.   TRENDS IN BIOCHEMICAL SCIENCES

RNA-mediated chromatin-based silencing in plants

(2009) Marjori Matzke et al.   CURRENT OPINION IN CELL BIOLOGY

An Arabidopsis jmjC domain protein protects transcribed genes from DNA methylation at CHG sites

(2009) Asuka Miura et al.   EMBO JOURNAL

RNA-directed DNA methylation and plant development require an IWR1-type transcription factor

(2009) Tatsuo Kanno et al.   EMBO REPORTS

Intergenic transcription by RNA Polymerase II coordinates Pol IV and Pol V in siRNA-directed transcriptional gene silencing in Arabidopsis

(2009) B. Zheng et al.   GENES & DEVELOPMENT

RNA polymerase V transcription guides ARGONAUTE4 to chromatin

(2009) Andrzej T Wierzbicki et al.   NATURE GENETICS

ATXR5 and ATXR6 are H3K27 monomethyltransferases required for chromatin structure and gene silencing

(2009) Yannick Jacob et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

RNA Polymerase IV Functions in Paramutation in Zea mays

(2009) K. F. Erhard et al.   SCIENCE

DNA methylation and the functional organization of the nuclear compartment

(2009) Jesús Espada et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

A Dominant Mutation in mediator of paramutation2, One of Three Second-Largest Subunits of a Plant-Specific RNA Polymerase, Disrupts Multiple siRNA Silencing Processes

(2009) Lyudmila Sidorenko et al.   PLoS Genetics

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) Yi Jia et al.   PLoS Genetics

Noncoding Transcription by RNA Polymerase Pol IVb/Pol V Mediates Transcriptional Silencing of Overlapping and Adjacent Genes

(2008) Andrzej T. Wierzbicki et al.   CELL

The Arabidopsis SDG4 contributes to the regulation of pollen tube growth by methylation of histone H3 lysines 4 and 36 in mature pollen

(2008) Joyce A. Cartagena et al.   DEVELOPMENTAL BIOLOGY

Tandem repeats upstream of the Arabidopsis endogene SDC recruit non-CG DNA methylation and initiate siRNA spreading

(2008) I. R. Henderson et al.   GENES & DEVELOPMENT

Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning

(2008) Shawn J. Cokus et al.   NATURE

A structural-maintenance-of-chromosomes hinge domain–containing protein is required for RNA-directed DNA methylation

(2008) Tatsuo Kanno et al.   NATURE GENETICS

Combinatorial patterns of histone acetylations and methylations in the human genome

(2008) Zhibin Wang et al.   NATURE GENETICS

The Highly Similar Arabidopsis Homologs of Trithorax ATX1 and ATX2 Encode Proteins with Divergent Biochemical Functions

(2008) A. Saleh et al.   PLANT CELL

Genome-Wide Association of Histone H3 Lysine Nine Methylation with CHG DNA Methylation in Arabidopsis thaliana

(2008) Yana V. Bernatavichute et al.   PLoS One

PolIVb influences RNA-directed DNA methylation independently of its role in siRNA biogenesis

(2008) R. A. Mosher et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Control of Genic DNA Methylation by a jmjC Domain-Containing Protein in Arabidopsis thaliana

(2008) H. Saze et al.   SCIENCE