Epigenetic Changes in the Regulation of Nicotiana tabacum Response to Cucumber Mosaic Virus Infection and Symptom Recovery through Single-Base Resolution Methylomes

Roles of the CSE1L-mediated nuclear import pathway in epigenetic silencing

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Single-base methylome analysis reveals dynamic epigenomic differences associated with water deficit in apple

(2017) Jidi Xu et al.   PLANT BIOTECHNOLOGY JOURNAL

Arabidopsism6A demethylase activity modulates viral infection of a plant virus and the m6A abundance in its genomic RNAs

(2017) Mireya Martínez-Pérez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A viral protein promotes host SAMS1 activity and ethylene production for the benefit of virus infection

(2017) Shanshan Zhao et al.   eLife

DNA Methylation and Demethylation in Plant Immunity

(2016) A. Deleris et al.   Annual Review of Phytopathology

The detection of hydrogen peroxide involved in plant virus infection by fluorescence spectroscopy

(2016) Rong Lei et al.   LUMINESCENCE

Genome, transcriptome and methylome sequencing of a primitively eusocial wasp reveal a greatly reduced DNA methylation system in a social insect

(2016) Daniel S. Standage et al.   MOLECULAR ECOLOGY

Identification of plant vacuolar transporters mediating phosphate storage

(2016) Tzu-Yin Liu et al.   Nature Communications

Genome-wide identification of endogenous RNA-directed DNA methylation loci associated with abundant 21-nucleotide siRNAs in Arabidopsis

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The Transcriptome and DNA Methylome Landscapes of Human Primordial Germ Cells

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Chloroplast Stromules Function during Innate Immunity

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DNA methylation pathways and their crosstalk with histone methylation

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Global Analysis Reveals the Crucial Roles of DNA Methylation during Rice Seed Development

(2015) Mei-Qing Xing et al.   PLANT PHYSIOLOGY

Methylome analysis reveals an important role for epigenetic changes in the regulation of theArabidopsisresponse to phosphate starvation

(2015) Lenin Yong-Villalobos et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Symptom recovery in virus-infected plants: Revisiting the role of RNA silencing mechanisms

(2015) Basudev Ghoshal et al.   VIROLOGY

Dissecting meiotic recombination based on tetrad analysis by single-microspore sequencing in maize

(2015) Xiang Li et al.   Nature Communications

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

Gene Body Methylation Can Alter Gene Expression and Is a Therapeutic Target in Cancer

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Molecular Mechanism of Action of Plant DRM De Novo DNA Methyltransferases

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Roles of plant hormones in the regulation of host-virus interactions

(2014) Mazen Alazem et al.   MOLECULAR PLANT PATHOLOGY

The DNA methylation landscape of human early embryos

(2014) Hongshan Guo et al.   NATURE

Single-cell genome-wide bisulfite sequencing for assessing epigenetic heterogeneity

(2014) Sébastien A Smallwood et al.   NATURE METHODS

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

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

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

Virus infection triggers widespread silencing of host genes by a distinct class of endogenous siRNAs inArabidopsis

(2014) Mengji Cao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The tobacco genome sequence and its comparison with those of tomato and potato

(2014) Nicolas Sierro et al.   Nature Communications

Hormonal and metabolic regulation of source–sink relations under salinity and drought: From plant survival to crop yield stability

(2013) Alfonso A. Albacete et al.   BIOTECHNOLOGY ADVANCES

BS-Seeker2: a versatile aligning pipeline for bisulfite sequencing data

(2013) Weilong Guo et al.   BMC GENOMICS

The maize methylome influences mRNA splice sites and reveals widespread paramutation-like switches guided by small RNA

(2013) M. Regulski et al.   GENOME RESEARCH

Single-cell methylome landscapes of mouse embryonic stem cells and early embryos analyzed using reduced representation bisulfite sequencing

(2013) H. Guo et al.   GENOME RESEARCH

Genome-Wide Analysis of DNA Methylation in Soybean

(2013) Qing-Xin Song et al.   Molecular Plant

Single-base resolution methylomes of tomato fruit development reveal epigenome modifications associated with ripening

(2013) Silin Zhong et al.   NATURE BIOTECHNOLOGY

DNA methylation: roles in mammalian development

(2013) Zachary D. Smith et al.   NATURE REVIEWS GENETICS

Non-CG methylation patterns shape the epigenetic landscape in Arabidopsis

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

Geminivirus Rep protein interferes with the plant DNA methylation machinery and suppresses transcriptional gene silencing

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Plant Immune Responses Against Viruses: How Does a Virus Cause Disease?

(2013) Kranthi K. Mandadi et al.   PLANT CELL

Gene body methylation is conserved between plant orthologs and is of evolutionary consequence

(2013) S. Takuno et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dynamics and biological relevance of DNA demethylation in Arabidopsis antibacterial defense

(2013) A. Yu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Plants regenerated from tissue culture contain stable epigenome changes in rice

(2013) Hume Stroud et al.   eLife

Single-base resolution maps of cultivated and wild rice methylomes and regulatory roles of DNA methylation in plant gene expression

(2012) Xin Li et al.   BMC GENOMICS

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

(2012) Ruiqiang Ye et al.   MOLECULAR CELL

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Suppression of Arabidopsis ARGONAUTE1-Mediated Slicing, Transgene-Induced RNA Silencing, and DNA Methylation by Distinct Domains of the Cucumber mosaic virus 2b Protein

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Genome-Wide Analysis of DNA Methylation and Gene Expression Changes in Two Arabidopsis Ecotypes and Their Reciprocal Hybrids

(2012) H. Shen et al.   PLANT CELL

C2-mediated decrease in DNA methylation, accumulation of siRNAs, and increase in expression for genes involved in defense pathways in plants infected with beet severe curly top virus

(2012) Li-Ping Yang et al.   PLANT JOURNAL

Characterization of a Viral Synergism in the Monocot Brachypodium distachyon Reveals Distinctly Altered Host Molecular Processes Associated with Disease

(2012) K. K. Mandadi et al.   PLANT PHYSIOLOGY

Transcriptome Analysis of Nicotiana tabacum Infected by Cucumber mosaic virus during Systemic Symptom Development

(2012) Jie Lu et al.   PLoS One

Widespread dynamic DNA methylation in response to biotic stress

(2012) R. H. Dowen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Trans Chromosomal Methylation in Arabidopsis hybrids

(2012) I. K. Greaves et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transcriptome and methylome interactions in rice hybrids

(2012) Ramakrishna K. Chodavarapu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Spontaneous epigenetic variation in the Arabidopsis thaliana methylome

(2011) Claude Becker 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

An Antiviral Defense Role of AGO2 in Plants

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

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

RNA-mediated chromatin-based silencing in plants

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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

RNA polymerase V transcription guides ARGONAUTE4 to chromatin

(2009) Andrzej T Wierzbicki et al.   NATURE GENETICS

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

(2008) Ryan Lister et al.   CELL

Viral Genome Methylation as an Epigenetic Defense against Geminiviruses

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

Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning

(2008) Shawn J. Cokus et al.   NATURE