Advances in epigenetics link genetics to the environment and disease

Hypoxia induces rapid changes to histone methylation and reprograms chromatin

(2019) Michael Batie et al.   SCIENCE

Histone demethylase KDM6A directly senses oxygen to control chromatin and cell fate

(2019) Abhishek A. Chakraborty et al.   SCIENCE

Canonical PRC1 controls sequence-independent propagation of Polycomb-mediated gene silencing

(2019) Hagar F. Moussa et al.   Nature Communications

An epigenetic biomarker of aging for lifespan and healthspan

(2018) Morgan E. Levine et al.   Aging-US

Placeholder Nucleosomes Underlie Germline-to-Embryo DNA Methylation Reprogramming

(2018) Patrick J. Murphy et al.   CELL

The Polycomb-Dependent Epigenome Controls β Cell Dysfunction, Dedifferentiation, and Diabetes

(2018) Tess Tsai-Hsiu Lu et al.   Cell Metabolism

Small RNA-Mediated trans -Nuclear and trans -Element Communications in Tetrahymena DNA Elimination

(2018) Tomoko Noto et al.   CURRENT BIOLOGY

dCas9: A Versatile Tool for Epigenome Editing

(2018) Daan J.W. Brocken et al.   CURRENT ISSUES IN MOLECULAR BIOLOGY

Impact of environmental conditions and chemicals on the neuronal epigenome

(2018) Beatriz del Blanco et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Structural Basis of Heterochromatin Formation by Human HP1

(2018) Shinichi Machida et al.   MOLECULAR CELL

Violent aggression predicted by multiple pre-adult environmental hits

(2018) Marina Mitjans et al.   MOLECULAR PSYCHIATRY

Multi‐Omics Factor Analysis—a framework for unsupervised integration of multi‐omics data sets

(2018) Ricard Argelaguet et al.   Molecular Systems Biology

Dynamics of the epigenetic landscape during the maternal-to-zygotic transition

(2018) Melanie A. Eckersley-Maslin et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The Key Role of Epigenetics in Human Disease Prevention and Mitigation

(2018) Andrew P. Feinberg   NEW ENGLAND JOURNAL OF MEDICINE

Transgenerational phenotype aggravation in CAF-1 mutants reveals parent-of-origin specific epigenetic inheritance

(2018) Iva Mozgova et al.   NEW PHYTOLOGIST

Epigenomics in 3D: importance of long-range spreading and specific interactions in epigenomic maintenance

(2018) Daniel Jost et al.   NUCLEIC ACIDS RESEARCH

Chromatin-based mechanisms of temperature memory in plants

(2018) Thomas Friedrich et al.   PLANT CELL AND ENVIRONMENT

The histone demethylase KDM6B regulates temperature-dependent sex determination in a turtle species

(2018) Chutian Ge et al.   SCIENCE

Early life experience drives structural variation of neural genomes in mice

(2018) Tracy A. Bedrosian et al.   SCIENCE

Chromatin domains rich in inheritance

(2018) Danny Reinberg et al.   SCIENCE

Epigenetic landscape influences the liver cancer genome architecture

(2018) Natsuko Hama et al.   Nature Communications

The Memory of Environmental Chemical Exposure in C. elegans Is Dependent on the Jumonji Demethylases jmjd-2 and jmjd-3/utx-1

(2018) Jessica Camacho et al.   Cell Reports

Genes and Aggressive Behavior: Epigenetic Mechanisms Underlying Individual Susceptibility to Aversive Environments

(2018) Sara Palumbo et al.   Frontiers in Behavioral Neuroscience

A stable mode of bookmarking by TBP recruits RNA polymerase II to mitotic chromosomes

(2018) Sheila S Teves et al.   eLife

Epigenetic control of variation and stochasticity in metabolic disease

(2018) Ilaria Panzeri et al.   Molecular Metabolism

Comprehensive Characterization of Cancer Driver Genes and Mutations

(2018) Matthew H. Bailey et al.   CELL

On the origin of the human germline

(2018) Toshihiro Kobayashi et al.   DEVELOPMENT

Metabolic regulation of pluripotency and germ cell fate through α‐ketoglutarate

(2018) Julia Tischler et al.   EMBO JOURNAL

Spatiotemporal regulation of liquid-like condensates in epigenetic inheritance

(2018) Gang Wan et al.   NATURE

Epigenetic inheritance mediated by coupling of RNAi and histone H3K9 methylation

(2018) Ruby Yu et al.   NATURE

Acquired resistance to IDH inhibition through trans or cis dimer-interface mutations

(2018) Andrew M. Intlekofer et al.   NATURE

Epigenome modifiers and metabolic rewiring: New frontiers in therapeutics

(2018) Alessandra Ferrari et al.   PHARMACOLOGY & THERAPEUTICS

A mechanism for preventing asymmetric histone segregation onto replicating DNA strands

(2018) Chuanhe Yu et al.   SCIENCE

MCM2 promotes symmetric inheritance of modified histones during DNA replication

(2018) Nataliya Petryk et al.   SCIENCE

Developmental barcoding of whole mouse via homing CRISPR

(2018) Reza Kalhor et al.   SCIENCE

EZH2 promotes DNA replication by stabilizing interaction of POLδ and PCNA via methylation-mediated PCNA trimerization

(2018) Peng A et al.   Epigenetics & Chromatin

Cell cycle-resolved chromatin proteomics reveals the extent of mitotic preservation of the genomic regulatory landscape

(2018) Paul Adrian Ginno et al.   Nature Communications

Transgenerational transmission of hedonic behaviors and metabolic phenotypes induced by maternal overnutrition

(2018) Gitalee Sarker et al.   Translational Psychiatry

Somatic and Germline Mutation Periodicity Follow the Orientation of the DNA Minor Groove around Nucleosomes

(2018) Oriol Pich et al.   CELL

Identification, Characterization, and Heritability of Murine Metastable Epialleles: Implications for Non-genetic Inheritance

(2018) Anastasiya Kazachenka et al.   CELL

Maternal Eed knockout causes loss of H3K27me3 imprinting and random X inactivation in the extraembryonic cells

(2018) Azusa Inoue et al.   GENES & DEVELOPMENT

Alterations in sperm long RNA contribute to the epigenetic inheritance of the effects of postnatal trauma

(2018) K. Gapp et al.   MOLECULAR PSYCHIATRY

Intergenerational and transgenerational epigenetic inheritance in animals

(2018) Marcos Francisco Perez et al.   NATURE CELL BIOLOGY

Super-resolution chromatin tracing reveals domains and cooperative interactions in single cells

(2018) Bogdan Bintu et al.   SCIENCE

The Growing Complexity of UHRF1-Mediated Maintenance DNA Methylation

(2018) Si Xie et al.   Genes

Oncohistones: drivers of pediatric cancers

(2017) Faizaan Mohammad et al.   GENES & DEVELOPMENT

Gene Resistance to Transcriptional Reprogramming following Nuclear Transfer Is Directly Mediated by Multiple Chromatin-Repressive Pathways

(2017) Jerome Jullien et al.   MOLECULAR CELL

Methylation of DNA Ligase 1 by G9a/GLP Recruits UHRF1 to Replicating DNA and Regulates DNA Methylation

(2017) Laure Ferry et al.   MOLECULAR CELL

Epigenetic restriction of extraembryonic lineages mirrors the somatic transition to cancer

(2017) Zachary D. Smith et al.   NATURE

KRAB zinc-finger proteins contribute to the evolution of gene regulatory networks

(2017) Michaël Imbeault et al.   NATURE

Maternal H3K27me3 controls DNA methylation-independent imprinting

(2017) Azusa Inoue et al.   NATURE

Single-nucleus Hi-C reveals unique chromatin reorganization at oocyte-to-zygote transition

(2017) Ilya M. Flyamer et al.   NATURE

Cell-cycle dynamics of chromosomal organization at single-cell resolution

(2017) Takashi Nagano et al.   NATURE

Multiplexed quantification of proteins and transcripts in single cells

(2017) Vanessa M Peterson et al.   NATURE BIOTECHNOLOGY

Stable Polycomb-dependent transgenerational inheritance of chromatin states in Drosophila

(2017) Filippo Ciabrelli et al.   NATURE GENETICS

Epigenomic reprogramming during pancreatic cancer progression links anabolic glucose metabolism to distant metastasis

(2017) Oliver G McDonald et al.   NATURE GENETICS

Mutational landscape of metastatic cancer revealed from prospective clinical sequencing of 10,000 patients

(2017) Ahmet Zehir et al.   NATURE MEDICINE

EZH2 is a potential therapeutic target for H3K27M-mutant pediatric gliomas

(2017) Faizaan Mohammad et al.   NATURE MEDICINE

One-step generation of conditional and reversible gene knockouts

(2017) Amanda Andersson-Rolf et al.   NATURE METHODS

A guide to designing germline-dependent epigenetic inheritance experiments in mammals

(2017) Johannes Bohacek et al.   NATURE METHODS

Massively multiplex single-cell Hi-C

(2017) Vijay Ramani et al.   NATURE METHODS

Associating cellular epigenetic models with human phenotypes

(2017) Tuuli Lappalainen et al.   NATURE REVIEWS GENETICS

Ten principles of heterochromatin formation and function

(2017) Robin C. Allshire et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Novel players in X inactivation: insights into Xist-mediated gene silencing and chromosome conformation

(2017) Simão T da Rocha et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The interaction between cytosine methylation and processes of DNA replication and repair shape the mutational landscape of cancer genomes

(2017) Rebecca C. Poulos et al.   NUCLEIC ACIDS RESEARCH

Propagation of Polycomb-repressed chromatin requires sequence-specific recruitment to DNA

(2017) Friederike Laprell et al.   SCIENCE

Transgenerational transmission of environmental information in C. elegans

(2017) Adam Klosin et al.   SCIENCE

Germ line–inherited H3K27me3 restricts enhancer function during maternal-to-zygotic transition

(2017) Fides Zenk et al.   SCIENCE

Causal role for inheritance of H3K27me3 in maintaining the OFF state of a Drosophila HOX gene

(2017) Rory T. Coleman et al.   SCIENCE

Manipulation of nuclear architecture through CRISPR-mediated chromosomal looping

(2017) Stefanie L. Morgan et al.   Nature Communications

Novel players in X inactivation: insights into Xist-mediated gene silencing and chromosome conformation

(2017) Simão T da Rocha et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

KMT2A and KMT2B Mediate Memory Function by Affecting Distinct Genomic Regions

(2017) Cemil Kerimoglu et al.   Cell Reports

Differential intron retention inJumonjichromatin modifier genes is implicated in reptile temperature-dependent sex determination

(2017) Ira W. Deveson et al.   Science Advances

Non-coding Transcripts from Enhancers: New Insights into Enhancer Activity and Gene Expression Regulation

(2017) Hongjun Chen et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Biological Age Predictors

(2017) Juulia Jylhävä et al.   EBioMedicine

Transgenerational programming of longevity through E(z)-mediated histone H3K27 trimethylation in Drosophila

(2016) Brian Xia et al.   Aging-US

The Genetics of Transcription Factor DNA Binding Variation

(2016) Bart Deplancke et al.   CELL

In Vivo Cellular Reprogramming: The Next Generation

(2016) Deepak Srivastava et al.   CELL

Exploring the read-write genome: mobile DNA and mammalian adaptation

(2016) James A. Shapiro   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

The landscape of accessible chromatin in mammalian preimplantation embryos

(2016) Jingyi Wu et al.   NATURE

Mitotic binding of Esrrb marks key regulatory regions of the pluripotency network

(2016) Nicola Festuccia et al.   NATURE CELL BIOLOGY

A two-state activation mechanism controls the histone methyltransferase Suv39h1

(2016) Manuel M Müller et al.   Nature Chemical Biology

The genomic landscape of balanced cytogenetic abnormalities associated with human congenital anomalies

(2016) Claire Redin et al.   NATURE GENETICS

Histone H3K9 methylation is dispensable for Caenorhabditis elegans development but suppresses RNA:DNA hybrid-associated repeat instability

(2016) Peter Zeller et al.   NATURE GENETICS

Epigenetic germline inheritance of diet-induced obesity and insulin resistance

(2016) Peter Huypens et al.   NATURE GENETICS

Organization and function of the 3D genome

(2016) Boyan Bonev et al.   NATURE REVIEWS GENETICS

Epigenetic inheritance of acquired traits through sperm RNAs and sperm RNA modifications

(2016) Qi Chen et al.   NATURE REVIEWS GENETICS

The molecular hallmarks of epigenetic control

(2016) C. David Allis et al.   NATURE REVIEWS GENETICS

Transgenerational influence of sensorimotor training on offspring behavior and its neural basis in Drosophila

(2016) Ziv M. Williams   NEUROBIOLOGY OF LEARNING AND MEMORY

Early-life nutrition modulates the epigenetic state of specific rDNA genetic variants in mice

(2016) Michelle L. Holland et al.   SCIENCE

Transgenerational inheritance: Models and mechanisms of non-DNA sequence-based inheritance

(2016) E. A. Miska et al.   SCIENCE

Genetic and environmental impacts on DNA methylation levels in twins

(2016) Idil Yet et al.   Epigenomics

DNA-Demethylating Agents Target Colorectal Cancer Cells by Inducing Viral Mimicry by Endogenous Transcripts

(2015) David Roulois et al.   CELL

A Unique Gene Regulatory Network Resets the Human Germline Epigenome for Development

(2015) Walfred W.C. Tang et al.   CELL

Developmental origins of health and disease

(2015) Jerrold J. Heindel et al.   CURRENT OPINION IN PEDIATRICS

The histone chaperone CAF-1 safeguards somatic cell identity

(2015) Sihem Cheloufi et al.   NATURE

Insulator dysfunction and oncogene activation in IDH mutant gliomas

(2015) William A. Flavahan et al.   NATURE

Cell-of-origin chromatin organization shapes the mutational landscape of cancer

(2015) Paz Polak et al.   NATURE

DNA methylation changes in plasticity genes accompany the formation and maintenance of memory

(2015) Rashi Halder et al.   NATURE NEUROSCIENCE

RNA-mediated epigenetic regulation of gene expression

(2015) Daniel Holoch et al.   NATURE REVIEWS GENETICS

Onco-exaptation of an endogenous retroviral LTR drives IRF5 expression in Hodgkin lymphoma

(2015) A Babaian et al.   ONCOGENE

Epigenetic (re)programming of caste-specific behavior in the ant Camponotus floridanus

(2015) D. F. Simola et al.   SCIENCE

Sperm tsRNAs contribute to intergenerational inheritance of an acquired metabolic disorder

(2015) Q. Chen et al.   SCIENCE

Restricted epigenetic inheritance of H3K9 methylation

(2015) P. N. C. B. Audergon et al.   SCIENCE

Disruption of histone methylation in developing sperm impairs offspring health transgenerationally

(2015) K. Siklenka et al.   SCIENCE

Biogenesis and function of tRNA fragments during sperm maturation and fertilization in mammals

(2015) U. Sharma et al.   SCIENCE

Paternal Diet Defines Offspring Chromatin State and Intergenerational Obesity

(2014) Anita Öst et al.   CELL

Starvation-Induced Transgenerational Inheritance of Small RNAs in C. elegans

(2014) Oded Rechavi et al.   CELL

Transgenerational Epigenetic Inheritance: Myths and Mechanisms

(2014) Edith Heard et al.   CELL

Too Much Success for Recent Groundbreaking Epigenetic Experiments

(2014) G. Francis   GENETICS

Human transgenerational responses to early-life experience: potential impact on development, health and biomedical research

(2014) Marcus Pembrey et al.   JOURNAL OF MEDICAL GENETICS

Cbx2 stably associates with mitotic chromosomes via a PRC2- or PRC1-independent mechanism and is needed for recruiting PRC1 complex to mitotic chromosomes

(2014) Chao Yu Zhen et al.   MOLECULAR BIOLOGY OF THE CELL

Synaptic, transcriptional and chromatin genes disrupted in autism

(2014) Silvia De Rubeis et al.   NATURE

Epigenetic reprogramming that prevents transgenerational inheritance of the vernalized state

(2014) Pedro Crevillén et al.   NATURE

Serving epigenetics before its time

(2014) Eric T. Juengst et al.   TRENDS IN GENETICS

Transient expression of Bcl6 is sufficient for oncogenic function and induction of mature B-cell lymphoma

(2014) Michael R. Green et al.   Nature Communications

Hypermutation of the Inactive X Chromosome Is a Frequent Event in Cancer

(2013) Natalie Jäger et al.   CELL

Single-cell Hi-C reveals cell-to-cell variability in chromosome structure

(2013) Takashi Nagano et al.   NATURE

Parental olfactory experience influences behavior and neural structure in subsequent generations

(2013) Brian G Dias et al.   NATURE NEUROSCIENCE

DNA methylation age of human tissues and cell types

(2013) Steve Horvath   GENOME BIOLOGY

Dynamics of the HP1β-PCNA-containing complexes in DNA replication and repair

(2013) Dominika O. Trembecka-Lucas et al.   Nucleus

Dynamics and Memory of Heterochromatin in Living Cells

(2012) Nathaniel A. Hathaway et al.   CELL

piRNAs Can Trigger a Multigenerational Epigenetic Memory in the Germline of C. elegans

(2012) Alyson Ashe et al.   CELL

Three-Dimensional Folding and Functional Organization Principles of the Drosophila Genome

(2012) Tom Sexton et al.   CELL

piRNA-mediated transgenerational inheritance of an acquired trait

(2012) T. Grentzinger et al.   GENOME RESEARCH

Topological domains in mammalian genomes identified by analysis of chromatin interactions

(2012) Jesse R. Dixon et al.   NATURE

Spatial partitioning of the regulatory landscape of the X-inactivation centre

(2012) Elphège P. Nora et al.   NATURE

Epigenetically Heritable Alteration of Fly Development in Response to Toxic Challenge

(2012) Shay Stern et al.   Cell Reports

Inheritance of Stress-Induced, ATF-2-Dependent Epigenetic Change

(2011) Ki-Hyeon Seong et al.   CELL

Transgenerational Inheritance of an Acquired Small RNA-Based Antiviral Response in C. elegans

(2011) Oded Rechavi et al.   CELL

Beyond DNA: integrating inclusive inheritance into an extended theory of evolution

(2011) Étienne Danchin et al.   NATURE REVIEWS GENETICS

De novo DNA methylation: a germ cell perspective

(2011) Sébastien A. Smallwood et al.   TRENDS IN GENETICS

Fetal Origins of Adult Disease

(2011) Kara Calkins et al.   Current Problems in Pediatric and Adolescent Health Care

Chronic high-fat diet in fathers programs β-cell dysfunction in female rat offspring

(2010) Sheau-Fang Ng et al.   NATURE

Heritable Individual-Specific and Allele-Specific Chromatin Signatures in Humans

(2010) R. McDaniell et al.   SCIENCE

An operational definition of epigenetics

(2009) S. L. Berger et al.   GENES & DEVELOPMENT

A Reconfigured Pattern of MLL Occupancy within Mitotic Chromatin Promotes Rapid Transcriptional Reactivation Following Mitotic Exit

(2009) Gerd A. Blobel et al.   MOLECULAR CELL

Epigenetic regulation of the glucocorticoid receptor in human brain associates with childhood abuse

(2009) Patrick O McGowan et al.   NATURE NEUROSCIENCE

A Role for RNAi in the Selective Correction of DNA Methylation Defects

(2009) F. K. Teixeira et al.   SCIENCE