Ten principles of heterochromatin formation and function

An Evolutionary Perspective on Yeast Mating-Type Switching

(2017) Sara J. Hanson et al.   GENETICS

SNF2 Family Protein Fft3 Suppresses Nucleosome Turnover to Promote Epigenetic Inheritance and Proper Replication

(2017) Nitika Taneja et al.   MOLECULAR CELL

Phase separation drives heterochromatin domain formation

(2017) Amy R. Strom et al.   NATURE

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

(2017) Michaël Imbeault et al.   NATURE

Liquid droplet formation by HP1α suggests a role for phase separation in heterochromatin

(2017) Adam G. Larson et al.   NATURE

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

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

(2017) Friederike Laprell et al.   SCIENCE

DNA sequence-dependent epigenetic inheritance of gene silencing and histone H3K9 methylation

(2017) Xiaoyi Wang et al.   SCIENCE

The conserved protein Seb1 drives transcription termination by binding RNA polymerase II and nascent RNA

(2017) Sina Wittmann 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

Sequencing the extrachromosomal circular mobilome reveals retrotransposon activity in plants

(2017) Sophie Lanciano et al.   PLoS Genetics

Oncometabolite D-2-Hydroxyglutarate enhances gene silencing through inhibition of specific H3K36 histone demethylases

(2017) Ryan Janke et al.   eLife

An Evolutionary Perspective on Yeast Mating-Type Switching

(2017) Sara J. Hanson et al.   GENETICS

Mechanisms of ATP-Dependent Chromatin Remodeling Motors

(2016) Coral Y. Zhou et al.   Annual Review of Biophysics

Position-effect variegation revisited: HUSHing up heterochromatin in human cells

(2016) Richard T. Timms et al.   BIOESSAYS

Inheritable Silencing of Endogenous Genes by Hit-and-Run Targeted Epigenetic Editing

(2016) Angelo Amabile et al.   CELL

Trim28 Haploinsufficiency Triggers Bi-stable Epigenetic Obesity

(2016) Kevin Dalgaard et al.   CELL

Human centromere repositioning within euchromatin after partial chromosome deletion

(2016) Lori L. Sullivan et al.   CHROMOSOME RESEARCH

New Xist -Interacting Proteins in X-Chromosome Inactivation

(2016) Hegias Mira-Bontenbal et al.   CURRENT BIOLOGY

The proper connection between shelterin components is required for telomeric heterochromatin assembly

(2016) Jiyong Wang et al.   GENES & DEVELOPMENT

The Nrd1-like protein Seb1 coordinates cotranscriptional 3′ end processing and polyadenylation site selection

(2016) Jean-François Lemay et al.   GENES & DEVELOPMENT

A single double-strand break system reveals repair dynamics and mechanisms in heterochromatin and euchromatin

(2016) Aniek Janssen et al.   GENES & DEVELOPMENT

Survival in Quiescence Requires the Euchromatic Deployment of Clr4/SUV39H by Argonaute-Associated Small RNAs

(2016) Richard I. Joh et al.   MOLECULAR CELL

Distinct Functions of Argonaute Slicer in siRNA Maturation and Heterochromatin Formation

(2016) Ruchi Jain et al.   MOLECULAR CELL

Temporal and Spatial Uncoupling of DNA Double Strand Break Repair Pathways within Mammalian Heterochromatin

(2016) Katerina Tsouroula et al.   MOLECULAR CELL

Regional glutamine deficiency in tumours promotes dedifferentiation through inhibition of histone demethylation

(2016) Min Pan et al.   NATURE CELL BIOLOGY

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

(2016) Peter Zeller et al.   NATURE GENETICS

SMC complexes: from DNA to chromosomes

(2016) Frank Uhlmann   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Generalized nucleation and looping model for epigenetic memory of histone modifications

(2016) Fabian Erdel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dynamics of epigenetic regulation at the single-cell level

(2016) L. Bintu et al.   SCIENCE

H3K9me3-Dependent Heterochromatin: Barrier to Cell Fate Changes

(2016) Justin S. Becker et al.   TRENDS IN GENETICS

Nucleation and spreading of a heterochromatic domain in fission yeast

(2016) Michaela J. Obersriebnig et al.   Nature Communications

MIWI2 as an Effector of DNA Methylation and Gene Silencing in Embryonic Male Germ Cells

(2016) Kanako Kojima-Kita et al.   Cell Reports

Metabolism and Epigenetics

(2015) Ryan Janke et al.   Annual Review of Cell and Developmental Biology

Product Binding Enforces the Genomic Specificity of a Yeast Polycomb Repressive Complex

(2015) Phillip A. Dumesic et al.   CELL

A One Precursor One siRNA Model for Pol IV-Dependent siRNA Biogenesis

(2015) Jixian Zhai et al.   CELL

Systematic Discovery of Xist RNA Binding Proteins

(2015) Ci Chu et al.   CELL

The Paf1 complex factors Leo1 and Paf1 promote local histone turnover to modulate chromatin states in fission yeast

(2015) L. Sadeghi et al.   EMBO REPORTS

The KRAB zinc finger protein ZFP809 is required to initiate epigenetic silencing of endogenous retroviruses

(2015) Gernot Wolf et al.   GENES & DEVELOPMENT

What Do You Mean, “Epigenetic”?

(2015) Carrie Deans et al.   GENETICS

The Xist lncRNA interacts directly with SHARP to silence transcription through HDAC3

(2015) Colleen A. McHugh et al.   NATURE

The Paf1 complex represses small-RNA-mediated epigenetic gene silencing

(2015) Katarzyna Maria Kowalik et al.   NATURE

The histone chaperone CAF-1 safeguards somatic cell identity

(2015) Sihem Cheloufi et al.   NATURE

Heterochromatic breaks move to the nuclear periphery to continue recombinational repair

(2015) Taehyun Ryu et al.   NATURE CELL BIOLOGY

The molecular basis for centromere identity and function

(2015) Kara L. McKinley et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

DNA methylation pathways and their crosstalk with histone methylation

(2015) Jiamu Du et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The inner centromere–shugoshin network prevents chromosomal instability

(2015) Yuji Tanno et al.   SCIENCE

Epigenetic silencing by the HUSH complex mediates position-effect variegation in human cells

(2015) I. A. Tchasovnikarova et al.   SCIENCE

A comprehensive Xist interactome reveals cohesin repulsion and an RNA-directed chromosome conformation

(2015) A. Minajigi et al.   SCIENCE

Restricted epigenetic inheritance of H3K9 methylation

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

A Werner syndrome stem cell model unveils heterochromatin alterations as a driver of human aging

(2015) W. Zhang et al.   SCIENCE

A Pooled shRNA Screen Identifies Rbm15, Spen, and Wtap as Factors Required for Xist RNA-Mediated Silencing

(2015) Benoit Moindrot et al.   Cell Reports

Identification of Spen as a Crucial Factor for Xist Function through Forward Genetic Screening in Haploid Embryonic Stem Cells

(2015) Asun Monfort et al.   Cell Reports

Intrinsic Toxicity of Unchecked Heterochromatin Spread Is Suppressed by Redundant Chromatin Boundary Functions in Schizosacchromyces pombe

(2015) Jennifer F. Garcia et al.   G3-Genes Genomes Genetics

The Fun30 Chromatin Remodeler Fft3 Controls Nuclear Organization and Chromatin Structure of Insulators and Subtelomeres in Fission Yeast

(2015) Babett Steglich et al.   PLoS Genetics

Local chromatin environment of a Polycomb target gene instructs its own epigenetic inheritance

(2015) Scott Berry et al.   eLife

Identification of Pol IV and RDR2-dependent precursors of 24 nt siRNAs guiding de novo DNA methylation in Arabidopsis

(2015) Todd Blevins et al.   eLife

What Do You Mean, “Epigenetic”?

(2015) Carrie Deans et al.   GENETICS

Molecular Mechanism of Action of Plant DRM De Novo DNA Methyltransferases

(2014) Xuehua Zhong et al.   CELL

Embryonic Development following Somatic Cell Nuclear Transfer Impeded by Persisting Histone Methylation

(2014) Shogo Matoba et al.   CELL

piRNAs: from biogenesis to function

(2014) E.-M. Weick et al.   DEVELOPMENT

Evolutionally dynamic L1 regulation in embryonic stem cells

(2014) N. Castro-Diaz et al.   GENES & DEVELOPMENT

The Mi-2 Homolog Mit1 Actively Positions Nucleosomes within Heterochromatin To Suppress Transcription

(2014) K. M. Creamer et al.   MOLECULAR AND CELLULAR BIOLOGY

A Two-Step Process for Epigenetic Inheritance in Arabidopsis

(2014) Todd Blevins et al.   MOLECULAR CELL

Determinants of Heterochromatic siRNA Biogenesis and Function

(2014) Ruby Yu et al.   MOLECULAR CELL

Intracellular α-ketoglutarate maintains the pluripotency of embryonic stem cells

(2014) Bryce W. Carey 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

Epigenetic inheritance uncoupled from sequence-specific recruitment

(2014) K. Ragunathan et al.   SCIENCE

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

SIR Proteins and the Assembly of Silent Chromatin in Budding Yeast

(2013) Stephanie Kueng et al.   Annual Review of Genetics

Mtr4-like Protein Coordinates Nuclear RNA Processing for Heterochromatin Assembly and for Telomere Maintenance

(2013) Nathan N. Lee et al.   CELL

Distinct roles for Sir2 and RNAi in centromeric heterochromatin nucleation, spreading and maintenance

(2013) Alessia Buscaino et al.   EMBO JOURNAL

A conserved ncRNA-binding protein recruits silencing factors to heterochromatin through an RNAi-independent mechanism

(2013) D. B. Marina et al.   GENES & DEVELOPMENT

DNA methylation profiling in X;autosome translocations supports a role for L1 repeats in the spread of X chromosome inactivation

(2013) Neeta Bala Tannan et al.   HUMAN MOLECULAR GENETICS

Division of Labor between the Chromodomains of HP1 and Suv39 Methylase Enables Coordination of Heterochromatin Spread

(2013) Bassem Al-Sady et al.   MOLECULAR CELL

High-resolution Xist binding maps reveal two-step spreading during X-chromosome inactivation

(2013) Matthew D. Simon et al.   NATURE

A conformational switch in HP1 releases auto-inhibition to drive heterochromatin assembly

(2013) Daniele Canzio et al.   NATURE

Translating dosage compensation to trisomy 21

(2013) Jun Jiang et al.   NATURE

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

(2013) Julie A. Law et al.   NATURE

Proteomic and genomic approaches reveal critical functions of H3K9 methylation and heterochromatin protein-1γ in reprogramming to pluripotency

(2013) Rupa Sridharan et al.   NATURE CELL BIOLOGY

Reconstructing de novo silencing of an active plant retrotransposon

(2013) Arturo Marí-Ordóñez et al.   NATURE GENETICS

HDAC-mediated suppression of histone turnover promotes epigenetic stability of heterochromatin

(2013) Ozan Aygün 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

The Xist lncRNA Exploits Three-Dimensional Genome Architecture to Spread Across the X Chromosome

(2013) J. M. Engreitz et al.   SCIENCE

Position-Effect Variegation, Heterochromatin Formation, and Gene Silencing in Drosophila

(2013) S. C. R. Elgin et al.   Cold Spring Harbor Perspectives in Biology

Maternal Depletion of Piwi, a Component of the RNAi System, Impacts Heterochromatin Formation in Drosophila

(2013) Tingting Gu et al.   PLoS Genetics

Transcriptional Silencing of Transposons by Piwi and Maelstrom and Its Impact on Chromatin State and Gene Expression

(2012) Grzegorz Sienski et al.   CELL

Dynamics and Memory of Heterochromatin in Living Cells

(2012) Nathaniel A. Hathaway et al.   CELL

Facilitators and Impediments of the Pluripotency Reprogramming Factors' Initial Engagement with the Genome

(2012) Abdenour Soufi et al.   CELL

Epigenetic Inactivation and Subsequent Heterochromatinization of a Centromere Stabilize Dicentric Chromosomes

(2012) Hiroshi Sato et al.   CURRENT BIOLOGY

Inhibition of  -KG-dependent histone and DNA demethylases by fumarate and succinate that are accumulated in mutations of FH and SDH tumor suppressors

(2012) M. Xiao et al.   GENES & DEVELOPMENT

RNAi triggered by specialized machinery silences developmental genes and retrotransposons

(2012) Soichiro Yamanaka et al.   NATURE

IDH mutation impairs histone demethylation and results in a block to cell differentiation

(2012) Chao Lu et al.   NATURE

H3K9 methylation is a barrier during somatic cell reprogramming into iPSCs

(2012) Jiekai Chen et al.   NATURE GENETICS

Chromatin replication and epigenome maintenance

(2012) Constance Alabert et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Heterochromatin protein 1 homologue Swi6 acts in concert with Ers1 to regulate RNAi-directed heterochromatin assembly

(2012) A. Hayashi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ers1 links HP1 to RNAi

(2012) M. Rougemaille et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Chromatin boundaries require functional collaboration between the hSET1 and NURF complexes

(2011) X. Li et al.   BLOOD

Double-Strand Breaks in Heterochromatin Move Outside of a Dynamic HP1a Domain to Complete Recombinational Repair

(2011) Irene Chiolo et al.   CELL

The Cul4-Ddb1Cdt2 Ubiquitin Ligase Inhibits Invasion of a Boundary-Associated Antisilencing Factor into Heterochromatin

(2011) Sigurd Braun et al.   CELL

Human tRNA genes function as chromatin insulators

(2011) Jesse R Raab et al.   EMBO JOURNAL

Defects in RNA quality control factors reveal RNAi-independent nucleation of heterochromatin

(2011) Francisca E Reyes-Turcu et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

DNA double-strand breaks in heterochromatin elicit fast repair protein recruitment, histone H2AX phosphorylation and relocation to euchromatin

(2011) Burkhard Jakob et al.   NUCLEIC ACIDS RESEARCH

Structural Basis of Silencing: Sir3 BAH Domain in Complex with a Nucleosome at 3.0 A Resolution

(2011) K.-J. Armache et al.   SCIENCE

RNA Elimination Machinery Targeting Meiotic mRNAs Promotes Facultative Heterochromatin Formation

(2011) M. Zofall et al.   SCIENCE

The FUN30 Chromatin Remodeler, Fft3, Protects Centromeric and Subtelomeric Domains from Euchromatin Formation

(2011) Annelie Strålfors et al.   PLoS Genetics

Stc1: A Critical Link between RNAi and Chromatin Modification Required for Heterochromatin Integrity

(2010) Elizabeth H. Bayne et al.   CELL

Dicer-Independent Primal RNAs Trigger RNAi and Heterochromatin Formation

(2010) Mario Halic et al.   CELL

Hairpin RNA induces secondary small interfering RNA synthesis and silencing in trans in fission yeast

(2010) Femke Simmer et al.   EMBO REPORTS

Combinatorial, site-specific requirement for heterochromatic silencing factors in the elimination of nucleosome-free regions

(2010) J. F. Garcia et al.   GENES & DEVELOPMENT

The Methyltransferase Activity of Clr4Suv39h Triggers RNAi Independently of Histone H3K9 Methylation

(2010) Erica L. Gerace et al.   MOLECULAR CELL

Multiple histone modifications in euchromatin promote heterochromatin formation by redundant mechanisms in Saccharomyces cerevisiae

(2009) Kitty F Verzijlbergen et al.   BMC MOLECULAR BIOLOGY

The Drosophila HP1 Homolog Rhino Is Required for Transposon Silencing and piRNA Production by Dual-Strand Clusters

(2009) Carla Klattenhoff et al.   CELL

Mechanisms that Specify Promoter Nucleosome Location and Identity

(2009) Paul D. Hartley et al.   CELL

Analysis of small RNA in fission yeast; centromeric siRNAs are potentially generated through a structured RNA

(2009) Ingela Djupedal et al.   EMBO JOURNAL

Hierarchical Inactivation of a Synthetic Human Kinetochore by a Chromatin Modifier

(2009) Stefano Cardinale et al.   MOLECULAR BIOLOGY OF THE CELL

Embryonic stem cells use ZFP809 to silence retroviral DNAs

(2009) Daniel Wolf et al.   NATURE

Role of the polycomb protein EED in the propagation of repressive histone marks

(2009) Raphael Margueron et al.   NATURE

RNA polymerase V transcription guides ARGONAUTE4 to chromatin

(2009) Andrzej T Wierzbicki et al.   NATURE GENETICS

Rethinking how DNA methylation patterns are maintained

(2009) Peter A. Jones et al.   NATURE REVIEWS GENETICS

Diverse roles of HP1 proteins in heterochromatin assembly and functions in fission yeast

(2009) T. Fischer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Synthetic Heterochromatin Bypasses RNAi and Centromeric Repeats to Establish Functional Centromeres

(2009) A. Kagansky et al.   SCIENCE

RNA Interference Guides Histone Modification during the S Phase of Chromosomal Replication

(2008) Anna Kloc et al.   CURRENT BIOLOGY

Inactivation of a Human Kinetochore by Specific Targeting of Chromatin Modifiers

(2008) Megumi Nakano et al.   DEVELOPMENTAL CELL

DNA methylation of retrotransposon genes is regulated by Piwi family members MILI and MIWI2 in murine fetal testes

(2008) S. Kuramochi-Miyagawa et al.   GENES & DEVELOPMENT

Ers1, a Rapidly Diverging Protein Essential for RNA Interference-dependent Heterochromatic Silencing inSchizosaccharomyces pombe

(2008) Mathieu Rougemaille et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

siRNA-Mediated Heterochromatin Establishment Requires HP1 and Is Associated with Antisense Transcription

(2008) Tetsushi Iida et al.   MOLECULAR CELL

HP1 Proteins Form Distinct Complexes and Mediate Heterochromatic Gene Silencing by Nonoverlapping Mechanisms

(2008) Mohammad R. Motamedi et al.   MOLECULAR CELL

A piRNA Pathway Primed by Individual Transposons Is Linked to De Novo DNA Methylation in Mice

(2008) Alexei A. Aravin et al.   MOLECULAR CELL

Piwi and piRNAs Act Upstream of an Endogenous siRNA Pathway to Suppress Tc3 Transposon Mobility in the Caenorhabditis elegans Germline

(2008) Partha P. Das et al.   MOLECULAR CELL

Cell cycle control of centromeric repeat transcription and heterochromatin assembly

(2008) Ee Sin Chen et al.   NATURE

Roles of the Clr4 methyltransferase complex in nucleation, spreading and maintenance of heterochromatin

(2008) Ke Zhang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Heterochromatin and RNAi Are Required to Establish CENP-A Chromatin at Centromeres

(2008) H. D. Folco et al.   SCIENCE