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https://www.readbyqxmd.com/read/29793052/title-lhp1-interacts-with-atrx-through-plant-specific-domains-at-specific-loci-targeted-by-prc2
#1
Haifeng Wang, Danhua Jiang, Elin Axelsson, Zdravko J Lorković, Sean Montgomery, Sarah Holec, Bas J G E Pieters, Abbas H K Al Temimi, Jasmin Mecinović, Frédéric Berger
Heterochromatin Protein 1 (HP1) is a major regulator of chromatin structure and function. In animals, the network of proteins interacting with HP1 is mainly associated with constitutive heterochromatin marked by H3K9me3. HP1 physically interacts with the putative orthologue of the SNF2 chromatin remodeler ATRX, which controls deposition of the histone variant H3.3 in mammals. In Arabidopsis thaliana, we show that the orthologue of ATRX participates in H3.3 deposition and characterize the function of conserved domains of plant ATRX...
May 21, 2018: Molecular Plant
https://www.readbyqxmd.com/read/29792595/brg1-governs-glucocorticoid-receptor-interactions-with-chromatin-and-pioneer-factors-across-the-genome
#2
Jackson A Hoffman, Kevin W Trotter, James M Ward, Trevor K Archer
The Glucocorticoid Receptor (GR) alters transcriptional activity in response to hormones by interacting with chromatin at GR binding sites (GBSs) throughout the genome. Our work in human breast cancer cells identifies three classes of GBSs with distinct epigenetic characteristics and reveals that BRG1 interacts with GBSs prior to hormone exposure. The GBSs pre-occupied by BRG1 are more accessible and transcriptionally active than other GBSs. BRG1 is required for a proper and robust transcriptional hormone response and knockdown of BRG1 blocks recruitment of the pioneer factors FOXA1 and GATA3 to GBSs...
May 24, 2018: ELife
https://www.readbyqxmd.com/read/29792221/sex-differences-in-cardiovascular-epigenetics-a-systematic-review
#3
REVIEW
Robin J G Hartman, Sarah E Huisman, Hester M den Ruijter
BACKGROUND: Differences in cardiovascular diseases are evident in men and women throughout life and are mainly attributed to the presence of sex hormones and chromosomes. Epigenetic mechanisms drive the regulation of the biological processes that may lead to CVD and are possibly influenced by sex. In order to gain an overview of the status quo on sex differences in cardiovascular epigenetics, we performed a systematic review. MATERIALS AND METHODS: A systematic search was performed on PubMed and Embase for studies mentioning cardiovascular disease, epigenetics, and anything related to sex differences...
May 23, 2018: Biology of Sex Differences
https://www.readbyqxmd.com/read/29791850/the-memory-of-environmental-chemical-exposure-in-c-elegans-is-dependent-on-the-jumonji-demethylases-jmjd-2-and-jmjd-3-utx-1
#4
Jessica Camacho, Lisa Truong, Zeyneb Kurt, Yen-Wei Chen, Marco Morselli, Gerardo Gutierrez, Matteo Pellegrini, Xia Yang, Patrick Allard
How artificial environmental cues are biologically integrated and transgenerationally inherited is still poorly understood. Here, we investigate the mechanisms of inheritance of reproductive outcomes elicited by the model environmental chemical Bisphenol A in C. elegans. We show that Bisphenol A (BPA) exposure causes the derepression of an epigenomically silenced transgene in the germline for 5 generations, regardless of ancestral response. Chromatin immunoprecipitation sequencing (ChIP-seq), histone modification quantitation, and immunofluorescence assays revealed that this effect is associated with a reduction of the repressive marks H3K9me3 and H3K27me3 in whole worms and in germline nuclei in the F3, as well as with reproductive dysfunctions, including germline apoptosis and embryonic lethality...
May 22, 2018: Cell Reports
https://www.readbyqxmd.com/read/29791843/cell-cycle-regulation-of-dynamic-chromosome-association-of-the-condensin-complex
#5
Rahul Thadani, Julia Kamenz, Sebastian Heeger, Sofía Muñoz, Frank Uhlmann
Eukaryotic cells inherit their genomes in the form of chromosomes, which are formed from the compaction of interphase chromatin by the condensin complex. Condensin is a member of the structural maintenance of chromosomes (SMC) family of ATPases, large ring-shaped protein assemblies that entrap DNA to establish chromosomal interactions. Here, we use the budding yeast Saccharomyces cerevisiae to dissect the role of the condensin ATPase and its relationship with cell-cycle-regulated chromosome binding dynamics...
May 22, 2018: Cell Reports
https://www.readbyqxmd.com/read/29791839/ubiquitylation-dynamics-of-the-clock-cell-proteome-and-timeless-during-a-circadian-cycle
#6
Áron Szabó, Christian Papin, David Cornu, Elisabeth Chélot, Zoltán Lipinszki, Andor Udvardy, Virginie Redeker, Ugo Mayor, François Rouyer
Circadian clocks have evolved as time-measuring molecular devices to help organisms adapt their physiology to daily changes in light and temperature. Transcriptional oscillations account for a large fraction of rhythmic protein abundance. However, cycling of various posttranslational modifications, such as ubiquitylation, also contributes to shape the rhythmic protein landscape. In this study, we used an in vivo ubiquitin labeling assay to investigate the circadian ubiquitylated proteome of Drosophila melanogaster...
May 22, 2018: Cell Reports
https://www.readbyqxmd.com/read/29791133/design-construction-and-validation-of-histone-binding-effectors-in-vitro-and-in-cells
#7
Stefan J Tekel, Cassandra M Barrett, Daniel A Vargas, Karmella A Haynes
Chromatin is a system of nuclear proteins and nucleic acids that plays a pivotal role in gene expression and cell behavior, and is therefore the subject of intense study for cell development and cancer research. Biochemistry, crystallography, and reverse genetics have elucidated the macromolecular interactions that drive chromatin regulation. One of the central mechanisms is the recognition of post translational modifications (PTMs) on histone proteins by a family of nuclear proteins known as "readers...
May 23, 2018: Biochemistry
https://www.readbyqxmd.com/read/29791073/elevated-histone-h3-acetylation-is-associated-with-genes-involving-in-t-lymphocyte-activation-and-gada-production-in-patients-with-type-1-diabetes
#8
Yanfei Wang, Can Hou, Jonathan Wisler, Kanhaiya Singh, Chao Wu, Zhiguo Xie, Qianjin Lu, Zhiguang Zhou
AIM: Genetic and epigenetic mechanisms have been implicated in the pathogenesis of type 1 diabetes (T1D), and histone acetylation is an epigenetic modification pattern that activates gene transcription. However, the genome-wide histone H3 acetylation in newly onset T1D patients has been less described. Accordingly, we aimed to unveil the genome-wide promoter acetylation profile in CD4+ T lymphocytes from T1D patients, especially for those with glutamate decarboxylase antibody (GADA) positive...
May 23, 2018: Journal of Diabetes Investigation
https://www.readbyqxmd.com/read/29790943/mutalisk-a-web-based-somatic-mutation-analyis-toolkit-for-genomic-transcriptional-and-epigenomic-signatures
#9
Jongkeun Lee, Andy Jinseok Lee, June-Koo Lee, Jongkeun Park, Youngoh Kwon, Seongyeol Park, Hyonho Chun, Young Seok Ju, Dongwan Hong
Somatic genome mutations occur due to combinations of various intrinsic/extrinsic mutational processes and DNA repair mechanisms. Different molecular processes frequently generate different signatures of somatic mutations in their own favored contexts. As a result, the regional somatic mutation rate is dependent on the local DNA sequence, the DNA replication/RNA transcription dynamics and epigenomic chromatin organization landscape in the genome. Here, we propose an online computational framework, termed Mutalisk, which correlates somatic mutations with various genomic, transcriptional and epigenomic features in order to understand mutational processes that contribute to the generation of the mutations...
May 22, 2018: Nucleic Acids Research
https://www.readbyqxmd.com/read/29790754/epiprofile-2-0-a-computational-platform-for-processing-epi-proteomics-mass-spectrometry-data
#10
Zuo-Fei Yuan, Simone Sidoli, Dylan M Marchione, Johayra Simithy, Kevin A Janssen, Mary R Szurgot, Benjamin A Garcia
Epigenetics has become a fundamental scientific discipline with various implications for biology and medicine. Epigenetic marks, mostly DNA methylation and histone post-translational modifications (PTMs), play important roles in chromatin structure and function. Accurate quantification of these marks is an ongoing challenge due to the variety of modifications and their wide dynamic range of abundance. Here, we present EpiProfile 2.0, an extended version of our 2015 software (v1.0) for accurate quantification of histone peptides based on liquid chromatography - tandem mass spectrometry (LC-MS/MS) analysis...
May 23, 2018: Journal of Proteome Research
https://www.readbyqxmd.com/read/29790665/long-noncoding-rna-ufc1-is-activated-by-e2f1-and-exerts-oncogenic-properties-by-functioning-as-a-cerna-of-foxp3
#11
Jie Xi, Jing Feng, Saitian Zeng, Ping Huang
Cervical cancer is one of the most common gynecologic cancers around the world. Long noncoding RNAs (lncRNAs) are considered to be important regulators of some biological processes. Recently, it has been reported that linc-UFC1 is a putative oncogene in some cancers. However, the functional roles of linc-UFC1 have not been investigated in cervical cancer. Here, it was demonstrated that linc-UFC1 expression was significantly increased in cervical cancer tissues, and its overexpression was associated with the poor survival of patients with cervical cancer...
May 23, 2018: Cancer Medicine
https://www.readbyqxmd.com/read/29790063/in-vitro-and-in-vivo-evaluation-of-antitumor-activity-of-ligustrum-robustum-a-chinese-herbal-tea
#12
Hao-Jiang Zuo, Shan Liu, Chun Yan, Li-Man Li, Xiao-Fang Pei
OBJECTIVE: To examine the effect of the aqueous extract of Ligustrum robustum on tumor growth in vitro and in vivo and explore the possible molecular mechanisms. METHODS: In in vitro study, cell viabilities of human cervical carcinoma cells (HeLa), human breast cancer cells (MCF-7), human prostate cancer cells (PC-3), human hepatoma cells (7721) and human colon carcinoma cells (SW480) were evaluated with cell counting kit-8. For L. robustum-treated Hela cells, early or late apoptosis were evaluated by annexin V/PI staining...
May 22, 2018: Chinese Journal of Integrative Medicine
https://www.readbyqxmd.com/read/29789885/instability-of-endosperm-development-in-amphiploids-and-their-parental-species-in-the-genus-avena-l
#13
Paulina Tomaszewska, Romuald Kosina
The development of oat endosperm is modified by chromatin and nuclei elimination, intrusive growth of cell walls, and polyploidisation of cell clones. The last event is correlated with somatic crossing-over. Grass endosperm is a variable tissue in terms of its cytogenetics and development. Free-nuclear syncytium and starchy and aleurone endosperm were the main focus of the research. These were studied in oat amphiploids (4x, 6x, and 8x) and parental species (2x, 4x, and 6x). What the levels of cytogenetic disorders and developmental anomalies in species versus hybrids are, and, what the factors are determining phenotypes of both tissue components, are open questions for oats...
May 22, 2018: Plant Cell Reports
https://www.readbyqxmd.com/read/29789597/enhancer-of-zeste-homolog-2-catalysed-h3k27-trimethylation-plays-a-key-role-in-acute-on-chronic-liver-failure-via-tnf-mediated-pathway
#14
Tianhui Zhou, Ye Sun, Ming Li, Yongsen Ding, Rongkun Yin, Ziqiang Li, Qing Xie, Shisan Bao, Wei Cai
Acute-on-chronic liver failure is mainly due to host immunity self-destruction. The histone H3 lysine 27 (H3K27) trimethylating enzyme, enhancer of zeste homolog 2 (EZH2) mediates epigenetic silencing of gene expression and regulates immunity, also involves pathogenesis of several liver diseases. The current study was to determine the role of methyltransferase EZH2 and its catalysed H3K27 trimethylation (H3K27me3) in liver failure, and to further investigate the potential target for liver failure treatment...
May 22, 2018: Cell Death & Disease
https://www.readbyqxmd.com/read/29789550/neutrophil-extracellular-traps-promote-macrophage-pyroptosis-in-sepsis
#15
Linsong Chen, Yanfeng Zhao, Dengming Lai, Peng Zhang, Yang Yang, Yuehua Li, Ke Fei, Gening Jiang, Jie Fan
In response to infection, polymorphonuclear neutrophils (PMN) are recruited in the infectious sites, and employ three major strategies to fight against the microbes including phagocytosis, degranulation, and neutrophil extracellular traps (NETs). NETs are a meshwork of chromatin fibers mixed with granule-derived antimicrobial peptides and enzymes, which trap and kill the bacteria extracellularly. In this study, by using a mouse sepsis model, we identified a novel mechanism by which NETs induce macrophage (Mϕ) pyroptosis, a caspase-1-dependent regulated cell death...
May 22, 2018: Cell Death & Disease
https://www.readbyqxmd.com/read/29789539/proteasomal-degradation-of-the-histone-acetyl-transferase-p300-contributes-to-beta-cell-injury-in-a-diabetes-environment
#16
Lucie Ruiz, Tatyana Gurlo, Magalie A Ravier, Anne Wojtusciszyn, Julia Mathieu, Matthew R Brown, Christophe Broca, Gyslaine Bertrand, Peter C Butler, Aleksey V Matveyenko, Stéphane Dalle, Safia Costes
In type 2 diabetes, amyloid oligomers, chronic hyperglycemia, lipotoxicity, and pro-inflammatory cytokines are detrimental to beta-cells, causing apoptosis and impaired insulin secretion. The histone acetyl transferase p300, involved in remodeling of chromatin structure by epigenetic mechanisms, is a key ubiquitous activator of the transcriptional machinery. In this study, we report that loss of p300 acetyl transferase activity and expression leads to beta-cell apoptosis, and most importantly, that stress situations known to be associated with diabetes alter p300 levels and functional integrity...
May 22, 2018: Cell Death & Disease
https://www.readbyqxmd.com/read/29789534/the-novel-klf4-plac8-signaling-pathway-regulates-lung-cancer-growth
#17
Yunlu Jia, Xiaogang Ying, Jichun Zhou, Yongxia Chen, Xiao Luo, Shudu Xie, Qin Chuan Wang, Wenxian Hu, Linbo Wang
Accumulating evidence suggests that placenta-specific 8 (PLAC8) plays an important role in normal cellular process and human diseases, including multiple types of human tumors, and its role is highly relied upon in cellular and physiologic contexts. However, there are no reports on its expression profile and biological roles during lung cancer development. In the current study, both the clinical implications and biological effects of PLAC8 in lung cancer (LC) progression were investigated, and we identified and described the novel Krüppel-like factor 4 (KLF4)/PLAC8 regulatory pathway in cancer progression...
May 22, 2018: Cell Death & Disease
https://www.readbyqxmd.com/read/29789527/regulator-of-chromatin-condensation-1-abrogates-the-g1-cell-cycle-checkpoint-via-cdk1-in-human-papillomavirus-e7-expressing-epithelium-and-cervical-cancer-cells
#18
Lijun Qiao, Jingyi Zheng, Yonghao Tian, Qishu Zhang, Xiao Wang, Jason J Chen, Weifang Zhang
Regulator of chromatin condensation 1 (RCC1) is a major guanine-nucleotide exchange factor for Ran GTPase and plays key roles in nucleo-cytoplasmic transport, mitosis, and nuclear envelope assembly. RCC1 is known to be a critical cell cycle regulator whose loss causes G1 phase arrest, but the molecular basis for this regulation is poorly understood. Furthermore, little is known about the relationship between RCC1 and carcinomas. Human papillomavirus (HPV) infection is highly associated with the development of cervical cancer...
May 22, 2018: Cell Death & Disease
https://www.readbyqxmd.com/read/29789391/mst2-kinase-suppresses-rdna-transcription-in-response-to-dna-damage-by-phosphorylating-nucleolar-histone-h2b
#19
Dafni Eleftheria Pefani, Maria Laura Tognoli, Deniz Pirincci Ercan, Vassilis Gorgoulis, Eric O'Neill
The heavily transcribed rDNA repeats that give rise to the ribosomal RNA are clustered in a unique chromatin structure, the nucleolus. Due to its highly repetitive nature and transcriptional activity, the nucleolus is considered a hotspot of genomic instability. Breaks in rDNA induce a transient transcriptional shut down to conserve energy and promote rDNA repair; however, how nucleolar chromatin is modified and impacts on rDNA repair is unknown. Here, we uncover that phosphorylation of serine 14 on histone H2B marks transcriptionally inactive nucleolar chromatin in response to DNA damage...
May 22, 2018: EMBO Journal
https://www.readbyqxmd.com/read/29788449/antisense-transcriptional-interference-mediates-condition-specific-gene-repression-in-budding-yeast
#20
Alicia Nevers, Antonia Doyen, Christophe Malabat, Bertrand Néron, Thomas Kergrohen, Alain Jacquier, Gwenael Badis
Pervasive transcription generates many unstable non-coding transcripts in budding yeast. The transcription of such noncoding RNAs, in particular antisense RNAs (asRNAs), has been shown in a few examples to repress the expression of the associated mRNAs. Yet, such mechanism is not known to commonly contribute to the regulation of a given class of genes. Using a mutant context that stabilized pervasive transcripts, we observed that the least expressed mRNAs during the exponential phase were associated with high levels of asRNAs...
May 18, 2018: Nucleic Acids Research
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