Divergent DNA methylation patterns associated with gene expression in rice cultivars with contrasting drought and salinity stress response

Genome-wide discovery and differential regulation of conserved and novel microRNAs in chickpea via deep sequencing

(2014) Mukesh Jain et al.   JOURNAL OF EXPERIMENTAL BOTANY

Induced and Constitutive DNA Methylation in a Salinity-Tolerant Wheat Introgression Line

(2014) Meng Wang et al.   PLANT AND CELL PHYSIOLOGY

Genome-Scale Transcriptomic Insights into Molecular Aspects of Abiotic Stress Responses in Chickpea

(2014) Rohini Garg et al.   PLANT MOLECULAR BIOLOGY REPORTER

Overproduction of stomatal lineage cells in Arabidopsis mutants defective in active DNA demethylation

(2014) Chizuko Yamamuro et al.   Nature Communications

Rice epigenomics and epigenetics: challenges and opportunities

(2013) Xiangsong Chen et al.   CURRENT OPINION IN PLANT BIOLOGY

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

Gene body methylation shows distinct patterns associated with different gene origins and duplication modes and has a heterogeneous relationship with gene expression inOryza sativa(rice)

(2013) Yupeng Wang et al.   NEW PHYTOLOGIST

Genomewide discovery of DNA polymorphisms in rice cultivars with contrasting drought and salinity stress response and their functional relevance

(2013) Mukesh Jain et al.   PLANT BIOTECHNOLOGY JOURNAL

Transgenerational Variations in DNA Methylation Induced by Drought Stress in Two Rice Varieties with Distinguished Difference to Drought Resistance

(2013) Xiaoguo Zheng et al.   PLoS One

Plants regenerated from tissue culture contain stable epigenome changes in rice

(2013) Hume Stroud et al.   eLife

Epigenetic responses to drought stress in rice (Oryza sativa L.)

(2013) Gayacharan et al.   PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS

Reprogramming of DNA Methylation in Pollen Guides Epigenetic Inheritance via Small RNA

(2012) Joseph P. Calarco et al.   CELL

CHH islands: de novo DNA methylation in near-gene chromatin regulation in maize

(2012) J. I. Gent et al.   GENOME RESEARCH

Stress-Induced Chromatin Changes: A Critical View on Their Heritability

(2012) A. Pecinka et al.   PLANT AND CELL PHYSIOLOGY

The Progeny of Arabidopsis thaliana Plants Exposed to Salt Exhibit Changes in DNA Methylation, Histone Modifications and Gene Expression

(2012) Andriy Bilichak et al.   PLoS One

NGS QC Toolkit: A Toolkit for Quality Control of Next Generation Sequencing Data

(2012) Ravi K. Patel et al.   PLoS One

Salt Stress Induced Variation in DNA Methylation Pattern and Its Influence on Gene Expression in Contrasting Rice Genotypes

(2012) Ratna Karan et al.   PLoS One

Transgenerational Inheritance of Modified DNA Methylation Patterns and Enhanced Tolerance Induced by Heavy Metal Stress in Rice (Oryza sativa L.)

(2012) Xiufang Ou et al.   PLoS One

Bioinformatic Analysis of Epigenetic and MicroRNA Mediated Regulation of Drought Responsive Genes in Rice

(2012) Rafi Shaik 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

Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

(2011) Felix Krueger et al.   BIOINFORMATICS

High-throughput approaches for plant epigenomic studies

(2011) Robert J Schmitz et al.   CURRENT OPINION IN PLANT BIOLOGY

Divergent DNA Methylation Patterns Associated with Abiotic Stress in Hevea brasiliensis

(2011) Thomas K. Uthup et al.   Molecular Plant

An siRNA pathway prevents transgenerational retrotransposition in plants subjected to stress

(2011) Hidetaka Ito et al.   NATURE

Genome-wide evidence for local DNA methylation spreading from small RNA-targeted sequences in Arabidopsis

(2011) Ikhlak Ahmed et al.   NUCLEIC ACIDS RESEARCH

Validation of internal control genes for quantitative gene expression studies in chickpea (Cicer arietinum L.)

(2010) Rohini Garg et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Modulation of transcription factor and metabolic pathway genes in response to water-deficit stress in rice

(2010) Swatismita Ray et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Drought-induced site-specific DNA methylation and its association with drought tolerance in rice (Oryza sativa L.)

(2010) Wen-Sheng Wang et al.   JOURNAL OF EXPERIMENTAL BOTANY

Environmentally induced phenotypes and DNA methylation: how to deal with unpredictable conditions until the next generation and after

(2010) BERNARD ANGERS et al.   MOLECULAR ECOLOGY

Transgenerational Inheritance and Resetting of Stress-Induced Loss of Epigenetic Gene Silencing in Arabidopsis

(2010) Christina Lang-Mladek et al.   Molecular Plant

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

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

Comparative analysis of drought-responsive transcriptome in Indica rice genotypes with contrasting drought tolerance

(2010) Sangram K. Lenka et al.   PLANT BIOTECHNOLOGY JOURNAL

Transgenerational Adaptation of Arabidopsis to Stress Requires DNA Methylation and the Function of Dicer-Like Proteins

(2010) Alex Boyko et al.   PLoS One

Local DNA hypomethylation activates genes in rice endosperm

(2010) A. Zemach et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dnmt3a-Dependent Nonpromoter DNA Methylation Facilitates Transcription of Neurogenic Genes

(2010) H. Wu et al.   SCIENCE

Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation

(2010) A. Zemach et al.   SCIENCE

Epigenetic regulation of stress responses in plants

(2009) Viswanathan Chinnusamy et al.   CURRENT OPINION IN PLANT BIOLOGY

Rice cytosine DNA methyltransferases - gene expression profiling during reproductive development and abiotic stress

(2009) Rita Sharma et al.   FEBS Journal

Epigenetic silencing of transposable elements: A trade-off between reduced transposition and deleterious effects on neighboring gene expression

(2009) J. D. Hollister et al.   GENOME RESEARCH

Selective epigenetic control of retrotransposition in Arabidopsis

(2009) Marie Mirouze et al.   NATURE

Transcriptional Regulatory Networks in Response to Abiotic Stresses in Arabidopsis and Grasses

(2009) K. Nakashima et al.   PLANT PHYSIOLOGY

Genomewide SNP variation reveals relationships among landraces and modern varieties of rice

(2009) K. L. McNally et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A metastable DWARF1 epigenetic mutant affecting plant stature in rice

(2009) K. Miura et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Extensive Demethylation of Repetitive Elements During Seed Development Underlies Gene Imprinting

(2009) M. Gehring et al.   SCIENCE

Genome-Wide Demethylation of Arabidopsis Endosperm

(2009) T.-F. Hsieh et al.   SCIENCE

Mu Transposon Insertion Sites and Meiotic Recombination Events Co-Localize with Epigenetic Marks for Open Chromatin across the Maize Genome

(2009) Sanzhen Liu et al.   PLoS Genetics

Epigenetic Regulation of Transposable Elements in Plants

(2008) Damon Lisch   Annual Review of Plant Biology

Genome-wide identification, organization and phylogenetic analysis of Dicer-like, Argonaute and RNA-dependent RNA Polymerase gene families and their expression analysis during reproductive development and stress in rice

(2008) Meenu Kapoor et al.   BMC GENOMICS

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

(2008) Ryan Lister et al.   CELL

Methyl-CpG binding proteins: specialized transcriptional repressors or structural components of chromatin?

(2008) T. Clouaire et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning

(2008) Shawn J. Cokus et al.   NATURE

The methylome: approaches for global DNA methylation profiling

(2008) Stephan Beck et al.   TRENDS IN GENETICS