RNA-directed DNA methylation efficiency depends on trigger and target sequence identity

A Dicer-Independent Route for Biogenesis of siRNAs that Direct DNA Methylation in Arabidopsis

(2016) Ruiqiang Ye et al.   MOLECULAR CELL

RNA-Directed DNA Methylation: The Evolution of a Complex Epigenetic Pathway in Flowering Plants

(2015) Marjori A. Matzke et al.   Annual Review of Plant Biology

A One Precursor One siRNA Model for Pol IV-Dependent siRNA Biogenesis

(2015) Jixian Zhai et al.   CELL

Dicer-independent RNA-directed DNA methylation in Arabidopsis

(2015) Dong-Lei Yang et al.   CELL RESEARCH

RNA Pol IV and V in gene silencing: Rebel polymerases evolving away from Pol II's rules

(2015) Ming Zhou et al.   CURRENT OPINION IN PLANT BIOLOGY

DNA methylation pathways and their crosstalk with histone methylation

(2015) Jiamu Du et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Small RNA Derived from the Virulence Modulating Region of thePotato spindle tuber viroidSilencescallose synthaseGenes of Tomato Plants

(2015) Charith Raj Adkar-Purushothama et al.   PLANT CELL

Epigenetic transitions leading to heritable, RNA-mediated de novo silencing inArabidopsis thaliana

(2015) Donna M. Bond et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Replicating Potato spindle tuber viroid mediatesde novomethylation of an intronic viroid sequence but no cleavage of the corresponding pre-mRNA

(2015) Athanasios Dalakouras et al.   RNA Biology

Identification of Pol IV and RDR2-dependent precursors of 24 nt siRNAs guiding de novo DNA methylation in Arabidopsis

(2015) Todd Blevins et al.   eLife

Molecular Mechanism of Action of Plant DRM De Novo DNA Methyltransferases

(2014) Xuehua Zhong et al.   CELL

ARGONAUTE 6 bridges transposable element mRNA-derived siRNAs to the establishment of DNA methylation

(2014) A. D. McCue et al.   EMBO JOURNAL

Specific Argonautes Selectively Bind Small RNAs Derived from Potato Spindle Tuber Viroid and Attenuate Viroid Accumulation In Vivo

(2014) S. Minoia et al.   JOURNAL OF VIROLOGY

Non-Coding RNA Transcription and RNA-Directed DNA Methylation in Arabidopsis

(2014) Xin-Jian He et al.   Molecular Plant

SRA- and SET-domain-containing proteins link RNA polymerase V occupancy to DNA methylation

(2014) Lianna M. Johnson et al.   NATURE

RNA-directed DNA methylation: an epigenetic pathway of increasing complexity

(2014) Marjori A. Matzke et al.   NATURE REVIEWS GENETICS

The SET Domain Proteins SUVH2 and SUVH9 Are Required for Pol V Occupancy at RNA-Directed DNA Methylation Loci

(2014) Zhang-Wei Liu et al.   PLoS Genetics

The Arabidopsis Nucleosome Remodeler DDM1 Allows DNA Methyltransferases to Access H1-Containing Heterochromatin

(2013) Assaf Zemach et al.   CELL

Comprehensive Analysis of Silencing Mutants Reveals Complex Regulation of the Arabidopsis Methylome

(2013) Hume Stroud et al.   CELL

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

(2013) Julie A. Law et al.   NATURE

Non-CG methylation patterns shape the epigenetic landscape in Arabidopsis

(2013) Hume Stroud et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

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

Revisiting RNA-directed DNA methylation

(2013) Athanasios Dalakouras et al.   RNA Biology

Using Tablet for visual exploration of second-generation sequencing data

(2012) I. Milne et al.   BRIEFINGS IN BIOINFORMATICS

Transgenerational maintenance of transgene body CG but not CHG and CHH methylation

(2012) Athanasios Dalakouras 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

NERD, a Plant-Specific GW Protein, Defines an Additional RNAi-Dependent Chromatin-Based Pathway in Arabidopsis

(2012) Dominique Pontier et al.   MOLECULAR CELL

A SWI/SNF Chromatin-Remodeling Complex Acts in Noncoding RNA-Mediated Transcriptional Silencing

(2012) Yongyou Zhu et al.   MOLECULAR CELL

DICER-LIKE 4 But Not DICER-LIKE 2 May Have a Positive Effect on Potato Spindle Tuber Viroid Accumulation in Nicotiana benthamiana

(2012) Elena Dadami et al.   Molecular Plant

DDR complex facilitates global association of RNA polymerase V to promoters and evolutionarily young transposons

(2012) Xuehua Zhong et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Roles of DICER-LIKE and ARGONAUTE Proteins in TAS-Derived Small Interfering RNA-Triggered DNA Methylation

(2012) L. Wu et al.   PLANT PHYSIOLOGY

Deep Sequencing of Small RNAs in Tomato for Virus and Viroid Identification and Strain Differentiation

(2012) Rugang Li et al.   PLoS One

Size and positional effects of promoter RNA segments on virus-induced RNA-directed DNA methylation and transcriptional gene silencing

(2011) Shungo Otagaki et al.   Epigenetics

DNA Methylation Mediated by a MicroRNA Pathway

(2010) Liang Wu et al.   MOLECULAR CELL

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

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

A chimeric satellite transgene sequence is inefficiently targeted by viroid-induced DNA methylation in tobacco

(2010) Athanasios Dalakouras et al.   PLANT MOLECULAR BIOLOGY

Origin, Biogenesis, and Activity of Plant MicroRNAs

(2009) Olivier Voinnet   CELL

MicroRNAs: Target Recognition and Regulatory Functions

(2009) David P. Bartel   CELL

RNA-Dependent RNA Polymerase 6 Delays Accumulation and Precludes Meristem Invasion of a Viroid That Replicates in the Nucleus

(2009) F. Di Serio et al.   JOURNAL OF VIROLOGY

RNA polymerase V transcription guides ARGONAUTE4 to chromatin

(2009) Andrzej T Wierzbicki et al.   NATURE GENETICS

A hairpin RNA construct residing in an intron efficiently triggered RNA-directed DNA methylation in tobacco

(2009) Athanasios Dalakouras et al.   PLANT JOURNAL

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

(2008) Andrzej T. Wierzbicki et al.   CELL

Viroids

(2008) Efthimia Mina Tsagris et al.   CELLULAR MICROBIOLOGY

A stepwise pathway for biogenesis of 24-nt secondary siRNAs and spreading of DNA methylation

(2008) Lucia Daxinger et al.   EMBO JOURNAL

DICER-LIKE2 Plays a Primary Role in Transitive Silencing of Transgenes in Arabidopsis

(2008) Sizolwenkosi Mlotshwa et al.   PLoS One

Roles of RNA polymerase IV in gene silencing

(2008) Craig S. Pikaard et al.   TRENDS IN PLANT SCIENCE

Double-stranded RNA interferes in a sequence-specific manner with the infection of representative members of the two viroid families

(2007) Alberto Carbonell et al.   VIROLOGY