DNA methylation pathways and their crosstalk with histone methylation

FBXL10 protects Polycomb-bound genes from hypermethylation

(2015) Mathieu Boulard et al.   NATURE GENETICS

In vivo targeting of de novo DNA methylation by histone modifications in yeast and mouse

(2015) Marco Morselli et al.   eLife

Understanding the relationship between DNA methylation and histone lysine methylation

(2014) Nathan R. Rose et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Molecular Mechanism of Action of Plant DRM De Novo DNA Methyltransferases

(2014) Xuehua Zhong et al.   CELL

A Two-Step Process for Epigenetic Inheritance in Arabidopsis

(2014) Todd Blevins et al.   MOLECULAR CELL

Accessibility of Different Histone H3-Binding Domains of UHRF1 Is Allosterically Regulated by Phosphatidylinositol 5-Phosphate

(2014) Kathy A. Gelato et al.   MOLECULAR CELL

Redundant Mechanisms to Form Silent Chromatin at Pericentromeric Regions Rely on BEND3 and DNA Methylation

(2014) Nehmé Saksouk et al.   MOLECULAR CELL

Mechanism of DNA Methylation-Directed Histone Methylation by KRYPTONITE

(2014) Jiamu Du et al.   MOLECULAR CELL

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

(2014) Lianna M. Johnson et al.   NATURE

An evolutionary arms race between KRAB zinc-finger genes ZNF91/93 and SVA/L1 retrotransposons

(2014) Frank M. J. Jacobs et al.   NATURE

Structural insight into autoinhibition and histone H3-induced activation of DNMT3A

(2014) Xue Guo et al.   NATURE

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

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

Regulation of DNA methylation turnover at LTR retrotransposons and imprinted loci by the histone methyltransferase Setdb1

(2014) D. Leung et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural and Functional Coordination of DNA and Histone Methylation

(2014) X. Cheng   Cold Spring Harbor Perspectives in Biology

The Mbd1-Atf7ip-Setdb1 pathway contributes to the maintenance of X chromosome inactivation

(2014) Alissa Minkovsky et al.   Epigenetics & Chromatin

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

Readout of Epigenetic Modifications

(2013) Dinshaw J. Patel et al.   Annual Review of Biochemistry

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

De novo DNA methylation of endogenous retroviruses is shaped by KRAB-ZFPs/KAP1 and ESET

(2013) H. M. Rowe et al.   DEVELOPMENT

Multivalent histone engagement by the linked tandem Tudor and PHD domains of UHRF1 is required for the epigenetic inheritance of DNA methylation

(2013) S. B. Rothbart et al.   GENES & DEVELOPMENT

Dynamic DNA methylation across diverse human cell lines and tissues

(2013) K. E. Varley et al.   GENOME RESEARCH

Pericentric Heterochromatin Generated by HP1 Protein Interaction-defective Histone Methyltransferase Suv39h1

(2013) Daisuke Muramatsu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The UHRF1 Protein Stimulates the Activity and Specificity of the Maintenance DNA Methyltransferase DNMT1 by an Allosteric Mechanism

(2013) Pavel Bashtrykov et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The DNA Methyltransferase Dnmt1 Directly Interacts with the SET and RING Finger-associated (SRA) Domain of the Multifunctional Protein Uhrf1 to Facilitate Accession of the Catalytic Center to Hemi-methylated DNA

(2013) Ahmet Can Berkyurek et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Uhrf1-dependent H3K23 ubiquitylation couples maintenance DNA methylation and replication

(2013) Atsuya Nishiyama et al.   NATURE

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

(2013) Julie A. Law et al.   NATURE

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

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

Global Epigenomic Reconfiguration During Mammalian Brain Development

(2013) R. Lister et al.   SCIENCE

Interplay between Active Chromatin Marks and RNA-Directed DNA Methylation in Arabidopsis thaliana

(2013) Maxim V. C. Greenberg et al.   PLoS Genetics

Convergent Transcription Induces Dynamic DNA Methylation at disiRNA Loci

(2013) Yunkun Dang et al.   PLoS Genetics

Dual Binding of Chromomethylase Domains to H3K9me2-Containing Nucleosomes Directs DNA Methylation in Plants

(2012) Jiamu Du et al.   CELL

Structure and function of the BAH domain in chromatin biology

(2012) Na Yang et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

DNA methylation in an intron of the IBM1 histone demethylase gene stabilizes chromatin modification patterns

(2012) Mélanie Rigal et al.   EMBO JOURNAL

Structural Insight into Coordinated Recognition of Trimethylated Histone H3 Lysine 9 (H3K9me3) by the Plant Homeodomain (PHD) and Tandem Tudor Domain (TTD) of UHRF1 (Ubiquitin-like, Containing PHD and RING Finger Domains, 1) Protein

(2012) Jingdong Cheng et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The BAH domain of ORC1 links H4K20me2 to DNA replication licensing and Meier–Gorlin syndrome

(2012) Alex J. Kuo et al.   NATURE

Functions of DNA methylation: islands, start sites, gene bodies and beyond

(2012) Peter A. Jones   NATURE REVIEWS GENETICS

Heterochromatin protein 1 forms distinct complexes to direct histone deacetylation and DNA methylation

(2012) Shinji Honda et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Developmentally non-redundant SET domain proteins SUVH2 and SUVH9 are required for transcriptional gene silencing in Arabidopsis thaliana

(2012) Markus Kuhlmann et al.   PLANT MOLECULAR BIOLOGY

Recognition of modification status on a histone H3 tail by linked histone reader modules of the epigenetic regulator UHRF1

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

Structure-Based Mechanistic Insights into DNMT1-Mediated Maintenance DNA Methylation

(2012) J. Song et al.   SCIENCE

Linking DNA Methyltransferases to Epigenetic Marks and Nucleosome Structure Genome-wide in Human Tumor Cells

(2012) Bilian Jin et al.   Cell Reports

In Vivo Control of CpG and Non-CpG DNA Methylation by DNA Methyltransferases

(2012) Julia Arand et al.   PLoS Genetics

An atypical component of RNA-directed DNA methylation machinery has both DNA methylation-dependent and -independent roles in locus-specific transcriptional gene silencing

(2011) Jun Liu et al.   CELL RESEARCH

Structural basis for site-specific reading of unmodified R2 of histone H3 tail by UHRF1 PHD finger

(2011) Chengkun Wang et al.   CELL RESEARCH

Crystal structure of PHD domain of UHRF1 and insights into recognition of unmodified histone H3 arginine residue 2

(2011) Lulu Hu et al.   CELL RESEARCH

Histone tails regulate DNA methylation by allosterically activating de novo methyltransferase

(2011) Bin-Zhong Li et al.   CELL RESEARCH

DNA Methylation and SETDB1/H3K9me3 Regulate Predominantly Distinct Sets of Genes, Retroelements, and Chimeric Transcripts in mESCs

(2011) Mohammad M. Karimi et al.   Cell Stem Cell

H3K9 methyltransferase G9a and the related molecule GLP

(2011) Y. Shinkai et al.   GENES & DEVELOPMENT

Recognition of Multivalent Histone States Associated with Heterochromatin by UHRF1 Protein

(2011) Nataliya Nady et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

PHD Finger Recognition of Unmodified Histone H3R2 Links UHRF1 to Regulation of Euchromatic Gene Expression

(2011) Eerappa Rajakumara et al.   MOLECULAR CELL

ATRX ADD domain links an atypical histone methylation recognition mechanism to human mental-retardation syndrome

(2011) Shigeki Iwase et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Combinatorial readout of histone H3 modifications specifies localization of ATRX to heterochromatin

(2011) Sebastian Eustermann et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The USP7/Dnmt1 complex stimulates the DNA methylation activity of Dnmt1 and regulates the stability of UHRF1

(2011) Max Felle et al.   NUCLEIC ACIDS RESEARCH

Structural insight into maintenance methylation by mouse DNA methyltransferase 1 (Dnmt1)

(2011) K. Takeshita et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Lysine methyltransferase G9a is required for de novo DNA methylation and the establishment, but not the maintenance, of proviral silencing

(2011) D. C. Leung et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Silencing of endogenous retroviruses: when and why do histone marks predominate?

(2011) Danny C. Leung et al.   TRENDS IN BIOCHEMICAL SCIENCES

MPP8 mediates the interactions between DNA methyltransferase Dnmt3a and H3K9 methyltransferase GLP/G9a

(2011) Yanqi Chang et al.   Nature Communications

CHD1 Remodels Chromatin and Influences Transient DNA Methylation at the Clock Gene frequency

(2011) William J. Belden et al.   PLoS Genetics

SHH1, a Homeodomain Protein Required for DNA Methylation, As Well As RDR2, RDM4, and Chromatin Remodeling Factors, Associate with RNA Polymerase IV

(2011) Julie A. Law et al.   PLoS Genetics

A Protein Complex Required for Polymerase V Transcripts and RNA- Directed DNA Methylation in Arabidopsis

(2010) Julie A. Law et al.   CURRENT BIOLOGY

Autocatalytic differentiation of epigenetic modifications within the Arabidopsis genome

(2010) Soichi Inagaki et al.   EMBO JOURNAL

Methyl-H3K9-binding protein MPP8 mediates E-cadherin gene silencing and promotes tumour cell motility and invasion

(2010) Kenji Kokura et al.   EMBO JOURNAL

Involvement of a Jumonji-C domain-containing histone demethylase in DRM2-mediated maintenance of DNA methylation

(2010) Angelique Deleris et al.   EMBO REPORTS

JMJ14, a JmjC domain protein, is required for RNA silencing and cell-to-cell movement of an RNA silencing signal in Arabidopsis

(2010) I. R. Searle et al.   GENES & DEVELOPMENT

The DMM complex prevents spreading of DNA methylation from transposons to nearby genes in Neurospora crassa

(2010) S. Honda et al.   GENES & DEVELOPMENT

Chromatin and sequence features that define the fine and gross structure of genomic methylation patterns

(2010) J. R. Edwards et al.   GENOME RESEARCH

The Dnmt3a PWWP Domain Reads Histone 3 Lysine 36 Trimethylation and Guides DNA Methylation

(2010) Arunkumar Dhayalan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Subset of the Histone H3 Lysine 9 Methyltransferases Suv39h1, G9a, GLP, and SETDB1 Participate in a Multimeric Complex

(2010) Lauriane Fritsch et al.   MOLECULAR CELL

KAP1 controls endogenous retroviruses in embryonic stem cells

(2010) Helen M. Rowe et al.   NATURE

Proviral silencing in embryonic stem cells requires the histone methyltransferase ESET

(2010) Toshiyuki Matsui et al.   NATURE

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

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

Chromatin methylation activity of Dnmt3a and Dnmt3a/3L is guided by interaction of the ADD domain with the histone H3 tail

(2010) Yingying Zhang et al.   NUCLEIC ACIDS RESEARCH

Identification of DIM-7, a protein required to target the DIM-5 H3 methyltransferase to chromatin

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

Structure of DNMT1-DNA Complex Reveals a Role for Autoinhibition in Maintenance DNA Methylation

(2010) J. Song et al.   SCIENCE

DNA Methylation and Normal Chromosome Behavior in Neurospora Depend on Five Components of a Histone Methyltransferase Complex, DCDC

(2010) Zachary A. Lewis et al.   PLoS Genetics

Structural basis for recognition of H3K4 methylation status by the DNA methyltransferase 3A ATRX–DNMT3–DNMT3L domain

(2009) Junji Otani et al.   EMBO REPORTS

High definition profiling of mammalian DNA methylation by array capture and single molecule bisulfite sequencing

(2009) E. Hodges et al.   GENOME RESEARCH

DNMT3B interacts with constitutive centromere protein CENP-C to modulate DNA methylation and the histone code at centromeric regions

(2009) Suhasni Gopalakrishnan et al.   HUMAN MOLECULAR GENETICS

KDM1B is a histone H3K4 demethylase required to establish maternal genomic imprints

(2009) David N. Ciccone et al.   NATURE

Embryonic stem cells use ZFP809 to silence retroviral DNAs

(2009) Daniel Wolf et al.   NATURE

Human DNA methylomes at base resolution show widespread epigenomic differences

(2009) Ryan Lister et al.   NATURE

RNA polymerase V transcription guides ARGONAUTE4 to chromatin

(2009) Andrzej T Wierzbicki et al.   NATURE GENETICS

The multi-domain protein Np95 connects DNA methylation and histone modification

(2009) Andrea Rottach et al.   NUCLEIC ACIDS RESEARCH

DNA Methylation Analysis of Chromosome 21 Gene Promoters at Single Base Pair and Single Allele Resolution

(2009) Yingying Zhang et al.   PLoS Genetics

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

(2008) Ryan Lister et al.   CELL

DNA methylation in ES cells requires the lysine methyltransferase G9a but not its catalytic activity

(2008) Kevin B Dong et al.   EMBO JOURNAL

Relics of repeat-induced point mutation direct heterochromatin formation in Neurospora crassa

(2008) Z. A. Lewis et al.   GENOME RESEARCH

Direct Interaction between DNA Methyltransferase DIM-2 and HP1 Is Required for DNA Methylation in Neurospora crassa

(2008) S. Honda et al.   MOLECULAR AND CELLULAR BIOLOGY

The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix

(2008) Hideharu Hashimoto et al.   NATURE

Recognition of hemi-methylated DNA by the SRA protein UHRF1 by a base-flipping mechanism

(2008) Kyohei Arita et al.   NATURE

Structural basis for recognition of hemi-methylated DNA by the SRA domain of human UHRF1

(2008) George V. Avvakumov et al.   NATURE

Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning

(2008) Shawn J. Cokus et al.   NATURE

The ankyrin repeats of G9a and GLP histone methyltransferases are mono- and dimethyllysine binding modules

(2008) Robert E Collins et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

De novo DNA methylation promoted by G9a prevents reprogramming of embryonically silenced genes

(2008) Silvina Epsztejn-Litman et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

ORTH/VIM proteins that regulate DNA methylation are functional ubiquitin E3 ligases

(2008) Edward Kraft et al.   PLANT JOURNAL

Genome-Wide Association of Histone H3 Lysine Nine Methylation with CHG DNA Methylation in Arabidopsis thaliana

(2008) Yana V. Bernatavichute et al.   PLoS One

Roles of RNA polymerase IV in gene silencing

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

Three SRA-Domain Methylcytosine-Binding Proteins Cooperate to Maintain Global CpG Methylation and Epigenetic Silencing in Arabidopsis

(2008) Hye Ryun Woo et al.   PLoS Genetics

SRA-Domain Proteins Required for DRM2-Mediated De Novo DNA Methylation

(2008) Lianna M. Johnson et al.   PLoS Genetics