Adenine methylation in eukaryotes: Apprehending the complex evolutionary history and functional potential of an epigenetic modification

DNA Methylation on N6-Adenine in C. elegans

(2015) Eric Lieberman Greer et al.   CELL

N6-Methyladenine DNA Modification in Drosophila

(2015) Guoqiang Zhang et al.   CELL

N6-Methyldeoxyadenosine Marks Active Transcription Start Sites in Chlamydomonas

(2015) Ye Fu et al.   CELL

Biochemical characterization of aNaegleriaTET-like oxygenase and its application in single molecule sequencing of 5-methylcytosine

(2015) June E. Pais et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

FTO is necessary for the induction of leptin resistance by high-fat feeding

(2015) Y.C. Loraine Tung et al.   Molecular Metabolism

Identification of the Glucosyltransferase That Converts Hydroxymethyluracil to Base J in the Trypanosomatid Genome

(2014) Whitney Bullard et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A TET Homologue Protein from Coprinopsis cinerea (CcTET) That Biochemically Converts 5-Methylcytosine to 5-Hydroxymethylcytosine, 5-Formylcytosine, and 5-Carboxylcytosine

(2014) Liang Zhang et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Gene expression regulation mediated through reversible m6A RNA methylation

(2014) Ye Fu et al.   NATURE REVIEWS GENETICS

Simultaneous sequencing of oxidized methylcytosines produced by TET/JBP dioxygenases inCoprinopsis cinerea

(2014) Lukas Chavez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SPR-5 and MET-2 function cooperatively to reestablish an epigenetic ground state during passage through the germ line

(2014) Shana C. Kerr et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DNA methylation in Caulobacter and other Alphaproteobacteria during cell cycle progression

(2014) Saswat S. Mohapatra et al.   TRENDS IN MICROBIOLOGY

Protein and DNA Modifications: Evolutionary Imprints of Bacterial Biochemical Diversification and Geochemistry on the Provenance of Eukaryotic Epigenetics

(2014) L. Aravind et al.   Cold Spring Harbor Perspectives in Biology

A Histone Methylation Network Regulates Transgenerational Epigenetic Memory in C. elegans

(2014) Eric L. Greer et al.   Cell Reports

Comprehensive analysis of the HEPN superfamily: identification of novel roles in intra-genomic conflicts, defense, pathogenesis and RNA processing

(2013) Vivek Anantharaman et al.   Biology Direct

Dynamic Readers for 5-(Hydroxy)Methylcytosine and Its Oxidized Derivatives

(2013) Cornelia G. Spruijt et al.   CELL

Programmed Heterogeneity: Epigenetic Mechanisms in Bacteria

(2013) Josep Casadesús et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

RNA Polymerase II CTD Modifications: How Many Tales From a Single Tail

(2013) Giuliana Napolitano et al.   JOURNAL OF CELLULAR PHYSIOLOGY

Structure of a Naegleria Tet-like dioxygenase in complex with 5-methylcytosine DNA

(2013) Hideharu Hashimoto et al.   NATURE

Structural basis for the modular recognition of single-stranded RNA by PPR proteins

(2013) Ping Yin et al.   NATURE

A METTL3–METTL14 complex mediates mammalian nuclear RNA N6-adenosine methylation

(2013) Jianzhao Liu et al.   Nature Chemical Biology

TETonic shift: biological roles of TET proteins in DNA demethylation and transcription

(2013) William A. Pastor et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Computational identification of novel biochemical systems involved in oxidation, glycosylation and other complex modifications of bases in DNA

(2013) Lakshminarayan M. Iyer et al.   NUCLEIC ACIDS RESEARCH

Type III restriction-modification enzymes: a historical perspective

(2013) Desirazu N. Rao et al.   NUCLEIC ACIDS RESEARCH

Highlights of the DNA cutters: a short history of the restriction enzymes

(2013) Wil A. M. Loenen et al.   NUCLEIC ACIDS RESEARCH

FTO-mediated formation of N6-hydroxymethyladenosine and N6-formyladenosine in mammalian RNA

(2013) Ye Fu et al.   Nature Communications

Programmed Protection of Foreign DNA from Restriction Allows Pathogenicity Island Exchange during Pneumococcal Transformation

(2013) Calum Johnston et al.   PLoS Pathogens

The HARE-HTH and associated domains

(2012) L. Aravind et al.   CELL CYCLE

Ter-dependent stress response systems: novel pathways related to metal sensing, production of a nucleoside-like metabolite, and DNA-processing

(2012) Vivek Anantharaman et al.   Molecular BioSystems

Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq

(2012) Dan Dominissini et al.   NATURE

Genome-wide mapping of methylated adenine residues in pathogenic Escherichia coli using single-molecule real-time sequencing

(2012) Gang Fang et al.   NATURE BIOTECHNOLOGY

The methylomes of six bacteria

(2012) Iain A. Murray et al.   NUCLEIC ACIDS RESEARCH

Gene flow and biological conflict systems in the origin and evolution of eukaryotes

(2012) L. Aravind et al.   Frontiers in Cellular and Infection Microbiology

The critical role of histone H2A-deubiquitinase Mysm1 in hematopoiesis and lymphocyte differentiation

(2011) A. Nijnik et al.   BLOOD

Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids

(2011) Lakshminarayan M. Iyer et al.   CELL CYCLE

N6-Methyladenosine in nuclear RNA is a major substrate of the obesity-associated FTO

(2011) Guifang Jia et al.   Nature Chemical Biology

DNA phosphorothioation is widespread and quantized in bacterial genomes

(2011) L. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reprogramming of the paternal genome upon fertilization involves genome-wide oxidation of 5-methylcytosine

(2011) Khursheed Iqbal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Tet-Mediated Formation of 5-Carboxylcytosine and Its Excision by TDG in Mammalian DNA

(2011) Y.-F. He et al.   SCIENCE

Tet Proteins Can Convert 5-Methylcytosine to 5-Formylcytosine and 5-Carboxylcytosine

(2011) S. Ito et al.   SCIENCE

Bacteriophage Mu Mom protein responsible for DNA modification is a new member of the acyltransferase superfamily

(2010) Katarzyna H. Kaminska et al.   CELL CYCLE

Methylation and demethylation of the Arabidopsis genome

(2010) Ian J Furner et al.   CURRENT OPINION IN PLANT BIOLOGY

Mammalian ALKBH8 Possesses tRNA Methyltransferase Activity Required for the Biogenesis of Multiple Wobble Uridine Modifications Implicated in Translational Decoding

(2010) L. Songe-Moller et al.   MOLECULAR AND CELLULAR BIOLOGY

Human AlkB Homolog ABH8 Is a tRNA Methyltransferase Required for Wobble Uridine Modification and DNA Damage Survival

(2010) D. Fu et al.   MOLECULAR AND CELLULAR BIOLOGY

Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation

(2010) A. Zemach et al.   SCIENCE

Cleavage of Phosphorothioated DNA and Methylated DNA by the Type IV Restriction Endonuclease ScoMcrA

(2010) Guang Liu et al.   PLoS Genetics

Twenty years hunting for sulfur in DNA

(2010) Shi Chen et al.   Protein & Cell

Mammalian cytosine methylation at a glance

(2009) S. K. T. Ooi et al.   JOURNAL OF CELL SCIENCE

Conversion of 5-Methylcytosine to 5-Hydroxymethylcytosine in Mammalian DNA by MLL Partner TET1

(2009) M. Tahiliani et al.   SCIENCE

Base J: Discovery, Biosynthesis, and Possible Functions

(2008) Piet Borst et al.   Annual Review of Microbiology

MutL homologs in restriction-modification systems and the origin of eukaryotic MORC ATPases

(2008) Lakshminarayan M Iyer et al.   Biology Direct

The Colorful History of Active DNA Demethylation

(2008) Steen K.T. Ooi et al.   CELL

Chromatin dynamics during epigenetic reprogramming in the mouse germ line

(2008) Petra Hajkova et al.   NATURE

Structural genomics reveals EVE as a new ASCH/PUA-related domain

(2008) Claudia Bertonati et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Natural history of the E1-like superfamily: Implication for adenylation, sulfur transfer, and ubiquitin conjugation

(2008) A. Maxwell Burroughs et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Real-Time DNA Sequencing from Single Polymerase Molecules

(2008) J. Eid et al.   SCIENCE

Mammalian DNA Methyltransferases: A Structural Perspective

(2008) Xiaodong Cheng et al.   STRUCTURE