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Xiaojun Cheng et al.
Plant communications, 2(1), 100092-100092 (2021-01-30)
Cellularization is a key event in endosperm development. Polycomb group (PcG) genes, such as Fertilization-Independent Seed 2 (FIS2), are vital for the syncytium-to-cellularization transition in Arabidopsis plants. In this study, we found that OsEMF2a, a rice homolog of the Arabidopsis...
PPAR? interprets a chromatin signature of pluripotency to promote embryonic differentiation at gastrulation.
Rotman, N; Guex, N; Gouranton, E; Wahli, W
Testing null
Distinct histone modifications define initiation and repair of meiotic recombination in the mouse.
Buard, J; Barthes, P; Grey, C; de Massy, B
The Embo Journal null
Michael P Schnetz et al.
Genome research, 19(4), 590-601 (2009-03-03)
CHD7 is a member of the chromodomain helicase DNA binding domain family of ATP-dependent chromatin remodeling enzymes. De novo mutation of the CHD7 gene is a major cause of CHARGE syndrome, a genetic disease characterized by a complex constellation of...
Yu-Chin Lien et al.
Cells, 9(6) (2020-06-13)
Intrauterine growth retardation (IUGR), which induces epigenetic modifications and permanent changes in gene expression, has been associated with the development of type 2 diabetes. Using a rat model of IUGR, we performed ChIP-Seq to identify and map genome-wide histone modifications...
Cutting edge: persistently open chromatin at effector gene loci in resting memory CD8+ T cells independent of transcriptional status.
Zediak, VP; Johnnidis, JB; Wherry, EJ; Berger, SL
Journal of immunology (Baltimore, Md. : 1950) (1950)
Li Yang et al.
Nature communications, 6, 7309-7309 (2015-06-13)
Heterosis, the phenotypic superiority of a hybrid over its parents, has been demonstrated for many traits in Arabidopsis thaliana, but its effect on defence remains largely unexplored. Here, we show that hybrids between some A. thaliana accessions show increased resistance...
Masayuki Matsui et al.
Nucleic acids research, 41(22), 10086-10109 (2013-09-04)
Although many long non-coding RNAs (lncRNAs) have been discovered, their function and their association with RNAi factors in the nucleus have remained obscure. Here, we identify RNA transcripts that overlap the cyclooxygenase-2 (COX-2) promoter and contain two adjacent binding sites...
Jun Wu et al.
Cell reports, 33(7), 108395-108395 (2020-11-19)
The mammalian SWitch/Sucrose Non-Fermentable (SWI/SNF) chromatin-remodeling BAF (BRG1/BRM-associated factor) complex plays an essential role in developmental and pathological processes. We show that the deletion of Baf155, which encodes a subunit of the BAF complex, in the Tie2(+) lineage (Baf155 (CKO)...
Xuanming Shi et al.
Nature communications, 5, 5425-5425 (2014-11-06)
The Sonic hedgehog (Shh) signalling pathway plays important roles during development and in cancer. Here we report a Shh-induced epigenetic switch that cooperates with Gli to control transcription outcomes. Before induction, poised Shh target genes are marked by a bivalent...
Principles of nucleation of H3K27 methylation during embryonic development.
van Heeringen, SJ; Akkers, RC; van Kruijsbergen, I; Arif, MA; Hanssen, LL; Sharifi, N; Veenstra, GJ
Genome Research null
Kyrie Pappas et al.
Communications biology, 4(1), 312-312 (2021-03-23)
Downregulation of the PTEN tumor suppressor transcript is frequent in breast cancer and associates with poor prognosis and triple-negative breast cancer (TNBC) when comparing breast cancers to one another. Here we show that in almost all cases, when comparing breast...
Benjamin Carter et al.
The Plant cell, 30(6), 1337-1352 (2018-05-29)
Selective, tissue-specific gene expression is facilitated by the epigenetic modification H3K27me3 (trimethylation of lysine 27 on histone H3) in plants and animals. Much remains to be learned about how H3K27me3-enriched chromatin states are constructed and maintained. Here, we identify a...
Andrew Keniry et al.
Epigenetics & chromatin, 9, 16-16 (2016-05-20)
The presence of histone 3 lysine 9 (H3K9) methylation on the mouse inactive X chromosome has been controversial over the last 15 years, and the functional role of H3K9 methylation in X chromosome inactivation in any species has remained largely unexplored....
Sarah-Anne David et al.
Biological procedures online, 19, 10-10 (2017-09-01)
Genomic loci associated with histone marks are typically analyzed by immunoprecipitation of the chromatin followed by quantitative-PCR (ChIP-qPCR) or high throughput sequencing (ChIP-seq). Chromatin can be either cross-linked (X-ChIP) or used in the native state (N-ChIP). Cross-linking of DNA and...
Wonho Na et al.
Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism, 37(12), 3695-3708 (2017-03-25)
The blood-brain barrier (BBB) exhibits a highly selective permeability to support the homeostasis of the central nervous system (CNS). The tight junctions in the BBB microvascular endothelial cells seal the paracellular space to prevent diffusion. Thus, disruption of tight junctions...
Tumor-specific retargeting of an oncogenic transcription factor chimera results in dysregulation of chromatin and transcription.
Patel, M; Simon, JM; Iglesia, MD; Wu, SB; McFadden, AW; Lieb, JD; Davis, IJ
Genome Research null
Jessica M Stringer et al.
BMC biology, 16(1), 104-104 (2018-09-22)
Defining the mechanisms that establish and regulate the transmission of epigenetic information from parent to offspring is critical for understanding disease heredity. Currently, the molecular pathways that regulate epigenetic information in the germline and its transmission to offspring are poorly...
Rosa María Marión et al.
eLife, 8 (2019-08-21)
The mechanisms that regulate pluripotency are still largely unknown. Here, we show that Telomere Repeat Binding Factor 1 (TRF1), a component of the shelterin complex, regulates the genome-wide binding of polycomb and polycomb H3K27me3 repressive marks to pluripotency genes, thereby...
David Monk et al.
Nucleic acids research, 39(11), 4577-4586 (2011-02-09)
Imprinted retrotransposed genes share a common genomic organization including a promoter-associated differentially methylated region (DMR) and a position within the intron of a multi-exonic 'host' gene. In the mouse, at least one transcript of the host gene is also subject...
Piera Smeriglio et al.
FASEB journal : official publication of the Federation of American Societies for Experimental Biology, 30(4), 1404-1415 (2015-12-17)
Understanding the regulation of the stem cell fate is fundamental for designing novel regenerative medicine strategies. Previous studies have suggested that pharmacological treatments with small molecules provide a robust and reversible regulation of the stem cell program. Previously, we showed...
Mulki Angela et al.
Nature communications, 7, 13683-13683 (2016-12-03)
To fulfil the bioenergetic requirements for increased cell size and clonal expansion, activated T cells reprogramme their metabolic signatures from energetically quiescent to activated. However, the molecular mechanisms and essential components controlling metabolic reprogramming in T cells are not well...
Reiko Matsuyama et al.
The Journal of biological chemistry, 285(24), 18166-18176 (2010-04-20)
Estrogen-related receptor alpha (ERRalpha) is a member of the nuclear receptor superfamily and regulates many physiological functions, including mitochondrial biogenesis and lipid metabolism. ERRalpha enhances the transactivation function without endogenous ligand by associating with coactivators such as peroxisome proliferator-activated receptor...
Chie Naruse et al.
FASEB journal : official publication of the Federation of American Societies for Experimental Biology, 34(3), 3956-3968 (2020-01-22)
Heterochromatin protein (HP) 1γ, a component of heterochromatin in eukaryotes, is involved in H3K9 methylation. Although HP1γ is expressed strongly in neural tissues and neural stem cells, its functions are unclear. To elucidate the roles of HP1γ, we analyzed HP1γ...
Ramon C Sun et al.
Cell metabolism, 30(5), 903-916 (2019-09-17)
Nuclear glycogen was first documented in the early 1940s, but its role in cellular physiology remained elusive. In this study, we utilized pure nuclei preparations and stable isotope tracers to define the origin and metabolic fate of nuclear glycogen. Herein...
Hua Wang et al.
PLoS genetics, 12(1), e1005771-e1005771 (2016-01-14)
Polycomb repressive complexes (PRCs) play crucial roles in transcriptional repression and developmental regulation in both plants and animals. In plants, depletion of different members of PRCs causes both overlapping and unique phenotypic defects. However, the underlying molecular mechanism determining the...
Gintarė Sendžikaitė et al.
Nature communications, 10(1), 1884-1884 (2019-04-25)
DNA methyltransferases (DNMTs) deposit DNA methylation, which regulates gene expression and is essential for mammalian development. Histone post-translational modifications modulate the recruitment and activity of DNMTs. The PWWP domains of DNMT3A and DNMT3B are posited to interact with histone 3...
The opposing transcriptional functions of Sin3a and c-Myc are required to maintain tissue homeostasis.
Nascimento, EM; Cox, CL; MacArthur, S; Hussain, S; Trotter, M; Blanco, S; Suraj et al.
Nature Cell Biology null
Paromita Das et al.
Open biology, 10(9), 200029-200029 (2020-09-03)
Tailless is a committed transcriptional repressor and principal regulator of the brain and eye development in Drosophila. Rpd3, the histone deacetylase, is an established repressor that interacts with co-repressors like Sin3a, Prospero, Brakeless and Atrophin. This study aims at deciphering...
Kathrin S Heinz et al.
Epigenetics & chromatin, 12(1), 18-18 (2019-03-16)
The genome of some vole rodents exhibit large blocks of heterochromatin coupled to their sex chromosomes. The DNA composition and transcriptional activity of these heterochromatin blocks have been studied, but little is known about their DNA replication dynamics and epigenetic...
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