15,698 results match your criteria chromatin remodeling


Diverse DNA Sequence Motifs Activate Meiotic Recombination Hotspots Through a Common Chromatin Remodeling Pathway.

Genetics 2019 Nov;213(3):789-803

Department of Biochemistry and Molecular Biology, University of Arkansas for Medical Sciences, Little Rock, Arkansas 72205-7199.

Homologous recombination is induced to high levels in meiosis and is clustered at hotspots that regulate its frequency and distribution in the genome. By studying five different classes of DNA sequence-dependent recombination hotspots in the fission yeast.. Read More

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November 2019

Actin and Nuclear Envelope Components Influence Ectopic Recombination in the Absence of Swr1.

Genetics 2019 Nov;213(3):819-834

Department of Genome Biology, Andalusian Molecular Biology and Regenerative Medicine Center (CABIMER), Consejo Superior de Investigaciones Científicas-University of Seville-University Pablo de Olavide, Spain.

The accuracy of most DNA processes depends on chromatin integrity and dynamics. Our analyses in the yeast Saccharomyces cerevisiae show that an absence of Swr1 (the catalytic and scaffold subunit of the chromatin-remodeling complex SWR) leads to the formation of long-duration Rad52, but not RPA, foci and to an increase in intramolecular recombination. These phenotypes are further increased by MMS, zeocin, and ionizing radiation, but not by double-strand breaks, HU, or transcription/replication collisions, suggesting that they are associated with specific DNA lesions. Read More

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November 2019

Diverse DNA Sequence Motifs Activate Meiotic Recombination Hotspots Through a Common Chromatin Remodeling Pathway.

Genetics 2019 Nov;213(3):789-803

Department of Biochemistry and Molecular Biology, University of Arkansas for Medical Sciences, Little Rock, Arkansas 72205-7199.

Homologous recombination is induced to high levels in meiosis and is clustered at hotspots that regulate its frequency and distribution in the genome. By studying five different classes of DNA sequence-dependent recombination hotspots in the fission yeast.. Read More

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November 2019

Actin and Nuclear Envelope Components Influence Ectopic Recombination in the Absence of Swr1.

Genetics 2019 Nov;213(3):819-834

Department of Genome Biology, Andalusian Molecular Biology and Regenerative Medicine Center (CABIMER), Consejo Superior de Investigaciones Científicas-University of Seville-University Pablo de Olavide, Spain.

The accuracy of most DNA processes depends on chromatin integrity and dynamics. Our analyses in the yeast Saccharomyces cerevisiae show that an absence of Swr1 (the catalytic and scaffold subunit of the chromatin-remodeling complex SWR) leads to the formation of long-duration Rad52, but not RPA, foci and to an increase in intramolecular recombination. These phenotypes are further increased by MMS, zeocin, and ionizing radiation, but not by double-strand breaks, HU, or transcription/replication collisions, suggesting that they are associated with specific DNA lesions. Read More

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November 2019

Natural Variation and Genetic Determinants of Caenorhabditis elegans Sperm Size.

Genetics 2019 Oct;213(2):615-632

Université Côte d'Azur, CNRS, Inserm, IBV, Nice 06100, France.

The diversity in sperm shape and size represents a powerful paradigm to understand how selection drives the evolutionary diversification of cell morphology. Experimental work on the sperm biology of the male-hermaphrodite nematode Caenorhabditis elegans has elucidated diverse factors important for sperm fertilization success, including the competitive superiority of larger sperm. Yet despite extensive research, the molecular mechanisms regulating C. Read More

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October 2019

Natural Variation and Genetic Determinants of Caenorhabditis elegans Sperm Size.

Genetics 2019 Oct;213(2):615-632

Université Côte d'Azur, CNRS, Inserm, IBV, Nice 06100, France.

The diversity in sperm shape and size represents a powerful paradigm to understand how selection drives the evolutionary diversification of cell morphology. Experimental work on the sperm biology of the male-hermaphrodite nematode Caenorhabditis elegans has elucidated diverse factors important for sperm fertilization success, including the competitive superiority of larger sperm. Yet despite extensive research, the molecular mechanisms regulating C. Read More

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October 2019

Targeting Mitochondrial Metabolism in Clear Cell Carcinoma of the Ovaries.

Int J Mol Sci 2021 Apr 29;22(9). Epub 2021 Apr 29.

Masonic Cancer Center and Department of Obstetrics, Gynecology and Women's Health, University of Minnesota, Minneapolis, MN 55455, USA.

Ovarian clear cell carcinoma (OCCC) is a rare but chemorefractory tumor. About 50% of all OCCC patients have inactivating mutations of , a member of the SWI/SNF chromatin-remodeling complex. Members of the SWI/SNF remodeling have emerged as regulators of the energetic metabolism of mammalian cells; however, the role of ARID1A as a modulator of the mitochondrial metabolism in OCCCs is yet to be defined. Read More

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Chromatin Remodeling in the Brain-a evelopmental Odyssey.

Int J Mol Sci 2021 Apr 30;22(9). Epub 2021 Apr 30.

Department of Cell and Molecular Medicine, University of Ottawa, Ottawa, ON K1H 8M5, Canada.

During brain development, the genome must be repeatedly reconfigured in order to facilitate neuronal and glial differentiation. A host of chromatin remodeling complexes facilitates this process. At the genetic level, the non-redundancy of these complexes suggests that neurodevelopment may require a lexicon of remodelers with different specificities and activities. Read More

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Defining key residues of the Swi1 prion domain in prion formation and maintenance.

Mol Cell Biol 2021 May 3. Epub 2021 May 3.

Department of Biochemistry and Molecular Genetics, Feinberg School of Medicine, Northwestern University, Chicago, Illinois, USA

Prions are self-perpetuating, alternative protein conformations associated with neurological diseases and normal cellular functions. contains many endogenous prions - providing a powerful system to study prionization. Previously, we demonstrated that Swi1, a component of the SWI/SNF chromatin-remodeling complex, can form the prion []. Read More

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Thyroid-Like Cholangiocarcinoma: Histopathological, Immunohistochemical, In-Situ Hybridization and Molecular Studies on an Uncommon Emerging Entity.

Int J Surg Pathol 2021 May 3:10668969211013906. Epub 2021 May 3.

New York Presbyterian-Weill Cornell Medicine, New York, NY, USA.

Thyroid-like cholangiocarcinoma is a very uncommon variant of peripheral-type cholangiocarcinoma. To date, only 4 prior cases have been reported. The molecular features of this tumor have not been described. Read More

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Mitochondrial cytochrome c shot towards histone chaperone condensates in the nucleus.

FEBS Open Bio 2021 May 3. Epub 2021 May 3.

Institute for Chemical Research (IIQ), Scientific Research Centre Isla de la Cartuja (cicCartuja), University of Seville - CSIC, Avda. Américo Vespucio 49, Sevilla, 41092, Spain.

Despite mitochondria being key for the control of cell homeostasis and fate, their role in DNA damage response (DDR) is usually just regarded as an apoptotic trigger. However, growing evidence points to mitochondrial factors modulating nuclear functions. Remarkably, after DNA damage, cytochrome c (Cc) interacts in the cell nucleus with a variety of well-known histone chaperones, whose activity is competitively inhibited by the hemeprotein. Read More

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Epigenetic landscape of testis specific histone H2B variant and its influence on sperm function.

Clin Epigenetics 2021 May 1;13(1):101. Epub 2021 May 1.

Department of Gamete Immunobiology, ICMR- National Institute for Research in Reproductive Health, Parel, Mumbai, 400012, India.

Background: Biological relevance of the major testis specific histone H2B variant (TH2B) in sperm is not fully understood. Studies in TH2A/TH2B double knockout male mice indicate its role in chromatin compaction and male fertility. Additionally, the presence of TH2B and TH2A reportedly generates more dynamic nucleosomes, leading to an open chromatin structure characteristic of transcriptionally active genome. Read More

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Multiple interactions of the oncoprotein transcription factor MYC with the SWI/SNF chromatin remodeler.

Oncogene 2021 Apr 30. Epub 2021 Apr 30.

Department of Biology, Middle Tennessee State University, Murfreesboro, TN, USA.

The SNF5 subunit of the SWI/SNF chromatin remodeling complex has been shown to act as a tumor suppressor through multiple mechanisms, including impairing the ability of the oncoprotein transcription factor MYC to bind chromatin. Beyond SNF5, however, it is unknown to what extent MYC can access additional SWI/SNF subunits or how these interactions affect the ability of MYC to drive transcription, particularly in SNF5-null cancers. Here, we report that MYC interacts with multiple SWI/SNF components independent of SNF5. Read More

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LSD1 defines erythroleukemia metabolism by controlling the lineage-specific transcription factors GATA1 and C/EBPα.

Blood Adv 2021 May;5(9):2305-2318

Department of Medical Cell Biology, Institute of Molecular Embryology and Genetics, and.

Acute myeloid leukemia (AML) is a heterogenous malignancy characterized by distinct lineage subtypes and various genetic/epigenetic alterations. As with other neoplasms, AML cells have well-known aerobic glycolysis, but metabolic variations depending on cellular lineages also exist. Lysine-specific demethylase-1 (LSD1) has been reported to be crucial for human leukemogenesis, which is currently one of the emerging therapeutic targets. Read More

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In Vivo Silencing of Genes Coding for dTip60 Chromatin Remodeling Complex Subunits Affects Polytene Chromosome Organization and Proper Development in .

Int J Mol Sci 2021 Apr 26;22(9). Epub 2021 Apr 26.

Dipartimento di Biologia e Biotecnologie "Charles Darwin" Sapienza Università di Roma, 00185 Rome, Italy.

Chromatin organization is developmentally regulated by epigenetic changes mediated by histone-modifying enzymes and chromatin remodeling complexes. In , the Tip60 chromatin remodeling complex (dTip60) play roles in chromatin regulation, which are shared by evolutionarily-related complexes identified in animal and plants. Recently, it was found that most subunits previously assigned to the dTip60 complex are shared by two related complexes, DOM-A. Read More

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Selective Targeting of Epigenetic Readers and Histone Deacetylases in Autoimmune and Inflammatory Diseases: Recent Advances and Future Perspectives.

J Pers Med 2021 Apr 23;11(5). Epub 2021 Apr 23.

Tytgat Institute for Liver and Intestinal Research, Amsterdam Gastroenterology Endocrinology Metabolism Research Institute, Amsterdam University Medical Centers, University of Amsterdam, 1105 BK Amsterdam, The Netherlands.

Histone deacetylases (HDACs) and bromodomain-containing proteins (BCPs) play a key role in chromatin remodeling. Based on their ability to regulate inducible gene expression in the context of inflammation and cancer, HDACs and BCPs have been the focus of drug discovery efforts, and numerous small-molecule inhibitors have been developed. However, dose-limiting toxicities of the first generation of inhibitors, which typically target multiple HDACs or BCPs, have limited translation to the clinic. Read More

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RNA Epigenetics: Fine-Tuning Chromatin Plasticity and Transcriptional Regulation, and the Implications in Human Diseases.

Genes (Basel) 2021 Apr 22;12(5). Epub 2021 Apr 22.

Department of Pathology, Hematopathology Section, University of Chicago, Chicago, IL 60637, USA.

Chromatin structure plays an essential role in eukaryotic gene expression and cell identity. Traditionally, DNA and histone modifications have been the focus of chromatin regulation; however, recent molecular and imaging studies have revealed an intimate connection between RNA epigenetics and chromatin structure. Accumulating evidence suggests that RNA serves as the interplay between chromatin and the transcription and splicing machineries within the cell. Read More

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Histone Epigenetic Signatures in Embryonic Limb Interdigital Cells Fated to Die.

Cells 2021 Apr 15;10(4). Epub 2021 Apr 15.

Departamento de Anatomía y Biología Celular, Instituto de Investigación Sanitaria Marqués de Valdecilla (IDIVAL), Universidad de Cantabria, 39011 Santander, Spain.

During limb formation in vertebrates with free digits, the interdigital mesoderm is eliminated by a massive degeneration process that involves apoptosis and cell senescence. The degradation process is preceded by intense DNA damage in zones located close to methylated DNA, accompanied by the activation of the DNA repair response. In this study, we show that trimethylated histone 3 (H3K4me3, H3K9me3, and H3K27me3) overlaps with zones positive for 5mC in the nuclei of interdigital cells. Read More

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Actin-Related Protein 4 Interacts with PIE1 and Regulates Gene Expression in .

Genes (Basel) 2021 Apr 2;12(4). Epub 2021 Apr 2.

Department of Horticulture, College of Horticulture and Plant Protection, Yangzhou University, Yangzhou 225009, China.

As essential structural components of ATP-dependent chromatin-remodeling complex, the nucleolus-localized actin-related proteins (ARPs) play critical roles in many biological processes. Among them, ARP4 is identified as an integral subunit of chromatin remodeling complex SWR1, which is conserved in yeast, humans and plants. It was shown that RNAi mediated knock-down of () could affect plant development, specifically, leading to early flowering. Read More

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Pickle Recruits Retinoblastoma Related 1 to Control Lateral Root Formation in .

Int J Mol Sci 2021 Apr 8;22(8). Epub 2021 Apr 8.

Department of Plant Physiology, Umeå Plant Science Center, Umeå University, S-901 87 Umeå, Sweden.

Lateral root (LR) formation is an example of a plant post-embryonic organogenesis event. LRs are issued from non-dividing cells entering consecutive steps of formative divisions, proliferation and elongation. The chromatin remodeling protein PICKLE (PKL) negatively regulates auxin-mediated LR formation through a mechanism that is not yet known. Read More

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Genome-Wide Mapping of Histone H3 Lysine 4 Trimethylation (H3K4me3) and Its Involvement in Fatty Acid Biosynthesis in Sunflower Developing Seeds.

Plants (Basel) 2021 Apr 6;10(4). Epub 2021 Apr 6.

Instituto de la Grasa (CSIC), Building 46, UPO Campus, Ctra. de Utrera km 1, 41013 Seville, Spain.

Histone modifications are of paramount importance during plant development. Investigating chromatin remodeling in developing oilseeds sheds light on the molecular mechanisms controlling fatty acid metabolism and facilitates the identification of new functional regions in oil crop genomes. The present study characterizes the epigenetic modifications H3K4me3 in relationship with the expression of fatty acid-related genes and transcription factors in developing sunflower seeds. Read More

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Treatment Strategies for ARID1A-Deficient Ovarian Clear Cell Carcinoma.

Cancers (Basel) 2021 Apr 7;13(8). Epub 2021 Apr 7.

Division of Genome Biology, National Cancer Center Research Institute, Tokyo 104-0045, Japan.

Ovarian clear cell carcinoma (OCCC) is a histological subtype of ovarian cancer that is more frequent in Asian countries (~25% of ovarian cancers) than in US/European countries (less than 10%). OCCC is refractory to conventional platinum-based chemotherapy, which is effective against high-grade serous carcinoma (HGSC), a major histological subtype of ovarian cancer. Notably, deleterious mutations in SWI/SNF chromatin remodeling genes, such as , are common in OCCC but rare in HGSC. Read More

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New Insights into Cellular Functions of Nuclear Actin.

Biology (Basel) 2021 Apr 7;10(4). Epub 2021 Apr 7.

The Houston Methodist Research Institute, Houston, TX 77030, USA.

Actin is one of the most abundant proteins in eukaryotic cells. There are different pools of nuclear actin often undetectable by conventional staining and commercial antibodies used to identify cytoplasmic actin. With the development of more sophisticated imaging and analytical techniques, it became clear that nuclear actin plays a crucial role in shaping the chromatin, genomic, and epigenetic landscape, transcriptional regulation, and DNA repair. Read More

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O-GlcNAcylation and O-GlcNAc Cycling Regulate Gene Transcription: Emerging Roles in Cancer.

Cancers (Basel) 2021 Apr 1;13(7). Epub 2021 Apr 1.

Department of Biochemistry and Molecular Biology, University of Kansas Medical Center, Kansas City, KS 66160, USA.

O-linked β-N-acetylglucosamine (O-GlcNAc) is a single sugar post-translational modification (PTM) of intracellular proteins linking nutrient flux through the Hexosamine Biosynthetic Pathway (HBP) to the control of cis-regulatory elements in the genome. Aberrant O-GlcNAcylation is associated with the development, progression, and alterations in gene expression in cancer. O-GlcNAc cycling is defined as the addition and subsequent removal of the modification by O-GlcNAc Transferase (OGT) and O-GlcNAcase (OGA) provides a novel method for cells to regulate various aspects of gene expression, including RNA polymerase function, epigenetic dynamics, and transcription factor activity. Read More

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Melanoma dedifferentiation induced by interferon-gamma epigenetic remodeling in response to anti-PD-1 therapy.

J Clin Invest 2021 Apr 29. Epub 2021 Apr 29.

Department of Medicine, UCLA, Los Angeles, United States of America.

Melanoma dedifferentiation has been reported as a state of cellular resistance to targeted therapies and immunotherapies as cancer cells revert to a more primitive cellular phenotype. Here we show that, counterintuitively, the biopsies of patient tumors that respond to anti-programmed cell death receptor 1 (PD-1) therapy decreased expression of melanocytic markers and increased neural crest markers, suggesting treatment-induced dedifferentiation. When modeling the effects in vitro, we documented that melanoma cell lines that were originally melanocytic differentiated underwent a process of neural crest dedifferentiation when continuously exposed to interferon gamma, through global chromatin landscape changes leading to enrichment in specific hyperaccessible chromatin regions. Read More

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The SRCAP chromatin remodeling complex promotes oxidative metabolism during prenatal heart development.

Development 2021 Apr 16;148(8). Epub 2021 Apr 16.

State Key Laboratory of Pharmaceutical Biotechnology, Department of Cardiology, Nanjing Drum Tower Hospital, The Affiliated Hospital of Medical School of Nanjing University, Nanjing 210093, China.

Mammalian heart development relies on cardiomyocyte mitochondrial maturation and metabolism. Embryonic cardiomyocytes make a metabolic shift from anaerobic glycolysis to oxidative metabolism by mid-gestation. VHL-HIF signaling favors anaerobic glycolysis but this process subsides by E14. Read More

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The Modular Circuitry of Apicomplexan Cell Division Plasticity.

Front Cell Infect Microbiol 2021 12;11:670049. Epub 2021 Apr 12.

Department of Biology, Boston College, Chestnut Hill, MA, United States.

The close-knit group of apicomplexan parasites displays a wide variety of cell division modes, which differ between parasites as well as between different life stages within a single parasite species. The beginning and endpoint of the asexual replication cycles is a 'zoite' harboring the defining apical organelles required for host cell invasion. However, the number of zoites produced per division round varies dramatically and can unfold in several different ways. Read More

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FACT subunit SUPT16H associates with BRD4 and contributes to silencing of antiviral interferon signaling.

bioRxiv 2021 Apr 21. Epub 2021 Apr 21.

FACT ( FA cilitates C hromatin T ranscription) is a heterodimeric protein complex composed of SUPT16H and SSRP1, and a histone chaperone participating in chromatin remodeling during gene transcription. FACT complex is profoundly regulated, and contributes to both gene activation and suppression. Here we reported that SUPT16H, a subunit of FACT, is acetylated at lysine 674 (K674) of middle domain (MD), which involves TIP60 histone acetyltransferase. Read More

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Coronavirus Disease 19 and Future Ecological Crises: Hopes from Epigenomics and Unraveling Genome Regulation in Humans and Infectious Agents.

Authors:
Kevin Dzobo

OMICS 2021 Apr 27. Epub 2021 Apr 27.

International Centre for Genetic Engineering and Biotechnology (ICGEB), Cape Town Component, Cape Town, South Africa.

With coronavirus disease 19 (COVID-19), we have witnessed a shift from public health to planetary health and a growing recognition of the importance of systems science in developing effective solutions against pandemics in the 21st century. COVID-19 and the history of frequent infectious outbreaks in the last two decades suggest that COVID-19 is likely a dry run for future ecological crises. Now is the right time to plan ahead and deploy the armamentarium of systems science scholarship for planetary health. Read More

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