Arabidopsis RNA Polymerase V Mediates Enhanced Compaction and Silencing of Geminivirus and Transposon Chromatin during Host Recovery from Infection

Exogenous Transposable Elements Circumvent Identity-Based Silencing, Permitting the Dissection of Expression-Dependent Silencing

(2017) Dalen Fultz et al.   PLANT CELL

Two Populations of Viral Minichromosomes Are Present in a Geminivirus-Infected Plant Showing Symptom Remission (Recovery)

(2016) Esther Adriana Ceniceros-Ojeda et al.   JOURNAL OF VIROLOGY

Arabidopsis RNA Polymerases IV and V Are Required To Establish H3K9 Methylation, but Not Cytosine Methylation, on Geminivirus Chromatin

(2016) Jamie N. Jackel et al.   JOURNAL OF VIROLOGY

A Land Plant-Specific Transcription Factor Directly Enhances Transcription of a Pathogenic Noncoding RNA Template by DNA-Dependent RNA Polymerase II

(2016) Ying Wang et al.   PLANT CELL

The First Rule of Plant Transposable Element Silencing: Location, Location, Location

(2016) Meredith J. Sigman et al.   PLANT CELL

Mobile small RNAs regulate genome-wide DNA methylation

(2016) Mathew G. Lewsey et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Herpesviral ICP0 Protein Promotes Two Waves of Heterochromatin Removal on an Early Viral Promoter during Lytic Infection

(2016) Jennifer S. Lee et al.   mBio

MNase titration reveals differences between nucleosome occupancy and chromatin accessibility

(2016) Jakub Mieczkowski et al.   Nature Communications

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

(2015) Jixian Zhai et al.   CELL

Silencing of active transposable elements in plants

(2015) Dalen Fultz 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

Form follows function in geminiviral minichromosome architecture

(2015) Tobias Paprotka et al.   VIRUS RESEARCH

Geminivirus-encoded TrAP suppressor inhibits the histone methyltransferase SUVH4/KYP to counter host defense

(2015) Claudia Castillo-González et al.   eLife

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

Analysis of Geminivirus AL2 and L2 Proteins Reveals a Novel AL2 Silencing Suppressor Activity

(2015) Jamie N. Jackel et al.   JOURNAL OF VIROLOGY

SUVR2 is involved in transcriptional gene silencing by associating with SNF2-related chromatin-remodeling proteins in Arabidopsis

(2014) Yong-Feng Han et al.   CELL RESEARCH

Detection of Pol IV/RDR2-dependent transcripts at the genomic scale inArabidopsisreveals features and regulation of siRNA biogenesis

(2014) Shaofang Li et al.   GENOME RESEARCH

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

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

SNF2 chromatin remodeler-family proteins FRG1 and -2 are required for RNA-directed DNA methylation

(2014) Martin Groth et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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) P. Butterbach et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Epigenetic Repression of Herpes Simplex Virus Infection by the Nucleosome Remodeler CHD3

(2014) J. H. Arbuckle et al.   mBio

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

(2013) Hume Stroud et al.   CELL

A step-by-step protocol for formaldehyde-assisted isolation of regulatory elements fromArabidopsis thaliana

(2013) Mohammad Amin Omidbakhshfard et al.   Journal of Integrative Plant Biology

Arabidopsis Double-Stranded RNA Binding Protein DRB3 Participates in Methylation-Mediated Defense against Geminiviruses

(2013) P. Raja et al.   JOURNAL OF VIROLOGY

Geminiviruses: masters at redirecting and reprogramming plant processes

(2013) Linda Hanley-Bowdoin et al.   NATURE REVIEWS MICROBIOLOGY

Measuring Arabidopsis Chromatin Accessibility Using DNase I-Polymerase Chain Reaction and DNase I-Chip Assays

(2013) H. Shu et al.   PLANT PHYSIOLOGY

The Initiation of Epigenetic Silencing of Active Transposable Elements Is Triggered by RDR6 and 21-22 Nucleotide Small Interfering RNAs

(2013) S. Nuthikattu et al.   PLANT PHYSIOLOGY

Mobile 24 nt Small RNAs Direct Transcriptional Gene Silencing in the Root Meristems of Arabidopsis thaliana

(2011) Charles W. Melnyk et al.   CURRENT BIOLOGY

An siRNA pathway prevents transgenerational retrotransposition in plants subjected to stress

(2011) Hidetaka Ito et al.   NATURE

BSCTV C2 Attenuates the Degradation of SAMDC1 to Suppress DNA Methylation-Mediated Gene Silencing inArabidopsis

(2011) Zhonghui Zhang et al.   PLANT CELL

Suppression of Methylation-Mediated Transcriptional Gene Silencing by βC1-SAHH Protein Interaction during Geminivirus-Betasatellite Infection

(2011) Xiuling Yang et al.   PLoS Pathogens

RNA silencing directed against geminiviruses: Post-transcriptional and epigenetic components

(2010) Priya Raja et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

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

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

Small Silencing RNAs in Plants Are Mobile and Direct Epigenetic Modification in Recipient Cells

(2010) A. Molnar et al.   SCIENCE

Geminivirus AL2 and L2 Proteins Suppress Transcriptional Gene Silencing and Cause Genome-Wide Reductions in Cytosine Methylation

(2009) R. C. Buchmann et al.   JOURNAL OF VIROLOGY

Inhibition of the histone demethylase LSD1 blocks α-herpesvirus lytic replication and reactivation from latency

(2009) Yu Liang et al.   NATURE MEDICINE

A Role for RNAi in the Selective Correction of DNA Methylation Defects

(2009) F. K. Teixeira et al.   SCIENCE

Kismeth: Analyzer of plant methylation states through bisulfite sequencing

(2008) Eyal Gruntman et al.   BMC BIOINFORMATICS

Highly Integrated Single-Base Resolution Maps of the Epigenome in Arabidopsis

(2008) Ryan Lister et al.   CELL

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

(2008) Andrzej T. Wierzbicki et al.   CELL

Herpes Simplex Virus ICP0 Promotes both Histone Removal and Acetylation on Viral DNA during Lytic Infection

(2008) A. R. Cliffe et al.   JOURNAL OF VIROLOGY

Viral Genome Methylation as an Epigenetic Defense against Geminiviruses

(2008) P. Raja et al.   JOURNAL OF VIROLOGY

Analyzing real-time PCR data by the comparative CT method

(2008) Thomas D Schmittgen et al.   Nature Protocols

Global Analysis of Arabidopsis Gene Expression Uncovers a Complex Array of Changes Impacting Pathogen Response and Cell Cycle during Geminivirus Infection

(2008) J. T. Ascencio-Ibanez et al.   PLANT PHYSIOLOGY