Critical roles of DNA demethylation in the activation of ripening-induced genes and inhibition of ripening-repressed genes in tomato fruit

A pair of transposon-derived proteins function in a histone acetyltransferase complex for active DNA demethylation

(2016) Cheng-Guo Duan et al.   CELL RESEARCH

Chilling-induced tomato flavor loss is associated with altered volatile synthesis and transient changes in DNA methylation

(2016) Bo Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DNA Methylation Signatures of the Plant Chromomethyltransferases

(2016) Quentin Gouil et al.   PLoS Genetics

A DNA ligase required for active DNA demethylation and genomic imprinting in Arabidopsis

(2015) Yan Li et al.   CELL RESEARCH

The Methyl-CpG-Binding Protein MBD7 Facilitates Active DNA Demethylation to Limit DNA Hyper-Methylation and Transcriptional Gene Silencing

(2015) Zhaobo Lang et al.   MOLECULAR CELL

Methyl-CpG-Binding Domain Protein MBD7 Is Required for Active DNA Demethylation in Arabidopsis

(2015) Chunlei Wang et al.   PLANT PHYSIOLOGY

A DEMETER-like DNA demethylase governs tomato fruit ripening

(2015) Ruie Liu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regulatory link between DNA methylation and active demethylation inArabidopsis

(2015) Mingguang Lei et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An AP Endonuclease Functions in Active DNA Demethylation and Gene Imprinting in Arabidopsis

(2015) Yan Li et al.   PLoS Genetics

Genome-wide identification of cytosine-5 DNA methyltransferases and demethylases in Solanum lycopersicum

(2014) Dongyan Cao et al.   GENE

Increasing tomato fruit quality by enhancing fruit chloroplast function. A double-edged sword?

(2014) Maria Florencia Cocaliadis et al.   JOURNAL OF EXPERIMENTAL BOTANY

Regulation of Active DNA Demethylation by an α-Crystallin Domain Protein in Arabidopsis

(2014) Weiqiang Qian et al.   MOLECULAR CELL

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

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

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

(2014) Chizuko Yamamuro et al.   Nature Communications

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

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

(2013) Assaf Zemach et al.   CELL

Application of the CRISPR–Cas System for Efficient Genome Engineering in Plants

(2013) Yanfei Mao 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

A Large-Scale Identification of Direct Targets of the Tomato MADS Box Transcription Factor RIPENING INHIBITOR Reveals the Regulation of Fruit Ripening

(2013) M. Fujisawa et al.   PLANT CELL

A Potential Role for CHH DNA Methylation in Cotton Fiber Growth Patterns

(2013) Xiang Jin et al.   PLoS One

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

BRAT-BW: efficient and accurate mapping of bisulfite-treated reads

(2012) Elena Y. Harris et al.   BIOINFORMATICS

A DNA 3′ Phosphatase Functions in Active DNA Demethylation in Arabidopsis

(2012) María Isabel Martínez-Macías et al.   MOLECULAR CELL

The tomato genome sequence provides insights into fleshy fruit evolution

(2012)   NATURE

A Histone Acetyltransferase Regulates Active DNA Demethylation in Arabidopsis

(2012) W. Qian et al.   SCIENCE

Genetics and Control of Tomato Fruit Ripening and Quality Attributes

(2011) Harry J. Klee et al.   Annual Review of Genetics

Regulation and function of DNA methylation in plants and animals

(2011) Xin-Jian He et al.   CELL RESEARCH

The Tomato MADS-Box Transcription Factor RIPENING INHIBITOR Interacts with Promoters Involved in Numerous Ripening Processes in a COLORLESS NONRIPENING-Dependent Manner

(2011) C. Martel et al.   PLANT PHYSIOLOGY

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

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

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

Active DNA Demethylation Mediated by DNA Glycosylases

(2009) Jian-Kang Zhu   Annual Review of Genetics

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS