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https://www.readbyqxmd.com/read/29326266/the-epigenetic-control-of-stemness-in-cd8-t-cell-fate-commitment
#1
Luigia Pace, Christel Goudot, Elina Zueva, Paul Gueguen, Nina Burgdorf, Joshua J Waterfall, Jean-Pierre Quivy, Geneviève Almouzni, Sebastian Amigorena
After priming, naïve CD8+ T lymphocytes establish specific heritable transcription programs that define progression to long-lasting memory cells or to short-lived effector cells. Although lineage specification is critical for protection, it remains unclear how chromatin dynamics contributes to the control of gene expression programs. We explored the role of gene silencing by the histone methyltransferase Suv39h1. In murine CD8+ T cells activated after Listeria monocytogenes infection, Suv39h1-dependent trimethylation of histone H3 lysine 9 controls the expression of a set of stem cell-related memory genes...
January 12, 2018: Science
https://www.readbyqxmd.com/read/29304555/the-epigenetic-contribution-to-the-development-and-progression-of-vascular-diabetic-complications
#2
Hanah Rodriguez, Assam El-Osta
SIGNIFICANCE: The number of people suffering from diabetes worldwide is steadily rising. Complications from diabetes, including cardiovascular and renal disease, contribute to the high morbidity and mortality associated with this disease. Recent Advances: hyperglycaemia promotes tissue damage through diverse mechanisms involving increased production of reactive oxygen species (ROS). Increased oxidative stress drives changes in chromatin structure that mediate gene expression changes leading to the up-regulation of pro-inflammatory and pro-fibrotic mediators...
January 5, 2018: Antioxidants & Redox Signaling
https://www.readbyqxmd.com/read/29301062/regulatory-roles-of-histone-deacetylases-1-and-2-in-pb-induced-neurotoxicity
#3
Yulan Wu, Yi Xu, Xiyao Huang, Danlei Ye, Miaomiao Han, Hui-Li Wang
Lead (Pb) prevails among the environmental hazards against human health. Although increasing evidence highlights the epigenetic roles underlying the Pb-induced neurotoxicity, the exact mechanisms concerning histone acetylation and its causative agents are still at its infancy. In the present study, the roles of histone deacetylases 1 and 2 (HDAC1/2), as well as histone H3 Lys9 acetylation (Ac-H3K9), in Pb-induced neurotoxicity were investigated. Pb was administered to PC12 cells at 10 μM for 24 hours. And Sprague- Dawley rats were chronically exposed to Pb through drinking water containing 250 ppm Pb for 2 months...
January 2, 2018: Toxicological Sciences: An Official Journal of the Society of Toxicology
https://www.readbyqxmd.com/read/29250060/epigenomic-views-of-innate-lymphoid-cells
#4
REVIEW
Giuseppe Sciumè, Han-Yu Shih, Yohei Mikami, John J O'Shea
The discovery of innate lymphoid cells (ILCs) with selective production of cytokines typically attributed to subsets of T helper cells forces immunologists to reassess the mechanisms by which selective effector functions arise. The parallelism between ILCs and T cells extends beyond these two cell types and comprises other innate-like T lymphocytes. Beyond the recognition of specialized effector functionalities in diverse lymphocytes, features typical of T cells, such as plasticity and memory, are also relevant for innate lymphocytes...
2017: Frontiers in Immunology
https://www.readbyqxmd.com/read/29244056/cscoretool-fast-hi-c-compartment-analysis-at-high-resolution
#5
Xiaobin Zheng, Yixian Zheng
Summary: The genome-wide chromosome conformation capture (Hi-C) has revealed that the eukaryotic genome can be partitioned into A and B compartments that have distinctive chromatin and transcription features. Current Principle Component Analyses (PCA)-based method for the A/B compartment prediction based on Hi-C data requires substantial CPU time and memory. We report the development of a method, CscoreTool, that enables fast and memory-efficient determination of A/B compartments at high resolution even in datasets with low sequencing depth...
December 13, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29236685/origin-and-differentiation-of-human-memory-cd8-t-cells-after-vaccination
#6
Rama S Akondy, Mark Fitch, Srilatha Edupuganti, Shu Yang, Haydn T Kissick, Kelvin W Li, Ben A Youngblood, Hossam A Abdelsamed, Donald J McGuire, Kristen W Cohen, Gabriela Alexe, Shashi Nagar, Megan M McCausland, Satish Gupta, Pramila Tata, W Nicholas Haining, M Juliana McElrath, David Zhang, Bin Hu, William J Greenleaf, Jorg J Goronzy, Mark J Mulligan, Marc Hellerstein, Rafi Ahmed
The differentiation of human memory CD8 T cells is not well understood. Here we address this issue using the live yellow fever virus (YFV) vaccine, which induces long-term immunity in humans. We used in vivo deuterium labelling to mark CD8 T cells that proliferated in response to the virus and then assessed cellular turnover and longevity by quantifying deuterium dilution kinetics in YFV-specific CD8 T cells using mass spectrometry. This longitudinal analysis showed that the memory pool originates from CD8 T cells that divided extensively during the first two weeks after infection and is maintained by quiescent cells that divide less than once every year (doubling time of over 450 days)...
December 13, 2017: Nature
https://www.readbyqxmd.com/read/29222089/core-binding-factor-%C3%AE-and-runx-transcription-factors-promote-adaptive-natural-killer-cell-responses
#7
Moritz Rapp, Colleen M Lau, Nicholas M Adams, Orr-El Weizman, Timothy E O'Sullivan, Clair D Geary, Joseph C Sun
Natural killer (NK) cells are innate lymphocytes that have features of adaptive immunity such as clonal expansion and generation of long-lived memory. Interleukin-12 (IL-12) signaling through its downstream transcription factor signal transducer and activator of transcription 4 (STAT4) is required for the generation of memory NK cells after expansion. We identify gene loci that are highly enriched for STAT4 binding using chromatin immunoprecipitation sequencing for STAT4 and the permissive histone mark H3K4me3 in activated NK cells...
December 8, 2017: Science Immunology
https://www.readbyqxmd.com/read/29220664/locked-and-loaded-inflammation-training-prepares-skin-epithelial-stem-cells-for-trauma
#8
Valentina Proserpio, Salvatore Oliviero, Giacomo Donati
Memory of a trauma and how to cope with it is useful for acting rapidly in the event of a second traumatic incident. Recently, Naik et al. (2017) reported in Nature that skin epithelial stem cells have this ability by maintaining long-term chromatin features acquired during the first assault.
December 7, 2017: Cell Stem Cell
https://www.readbyqxmd.com/read/29211713/runx3-programs-cd8-t-cell-residency-in-non-lymphoid-tissues-and-tumours
#9
J Justin Milner, Clara Toma, Bingfei Yu, Kai Zhang, Kyla Omilusik, Anthony T Phan, Dapeng Wang, Adam J Getzler, Toan Nguyen, Shane Crotty, Wei Wang, Matthew E Pipkin, Ananda W Goldrath
Tissue-resident memory CD8+ T (TRM) cells are found at common sites of pathogen exposure, where they elicit rapid and robust protective immune responses. However, the molecular signals that control TRM cell differentiation and homeostasis are not fully understood. Here we show that mouse TRM precursor cells represent a unique CD8+ T cell subset that is distinct from the precursors of circulating memory cell populations at the levels of gene expression and chromatin accessibility. Using computational and pooled in vivo RNA interference screens, we identify the transcription factor Runx3 as a key regulator of TRM cell differentiation and homeostasis...
December 6, 2017: Nature
https://www.readbyqxmd.com/read/29190361/shaping-epigenetic-memory-via-genomic-bookmarking
#10
Davide Michieletto, Michael Chiang, Davide Colì, Argyris Papantonis, Enzo Orlandini, Peter R Cook, Davide Marenduzzo
Reconciling the stability of epigenetic patterns with the rapid turnover of histone modifications and their adaptability to external stimuli is an outstanding challenge. Here, we propose a new biophysical mechanism that can establish and maintain robust yet plastic epigenetic domains via genomic bookmarking (GBM). We model chromatin as a recolourable polymer whose segments bear non-permanent histone marks (or colours) which can be modified by 'writer' proteins. The three-dimensional chromatin organisation is mediated by protein bridges, or 'readers', such as Polycomb Repressive Complexes and Transcription Factors...
November 28, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29175155/neuroanatomical-distribution-of-dek-protein-in-corticolimbic-circuits-associated-with-learning-and-memory-in-adult-male-and-female-mice
#11
Valentina Ghisays, Elizabeth T Nguyen, Joshua Streicher, Nicholas A Pease, Maureen Fitzgerald, Christina M Estrada, Ana Franco-Villanueva, Lisa Privette Vinnedge, Matia B Solomon
DEK, a chromatin-remodeling gene expressed in most human tissues, is known for its role in cancer biology and autoimmune diseases. DEK depletion in vitro reduces cellular proliferation, induces DNA damage subsequently leading to apoptosis, and down-regulates canonical Wnt/β-catenin signaling, a molecular pathway essential for learning and memory. Despite a recognized role in cancer (non-neuronal) cells, DEK expression and function is not well characterized in the central nervous system. We conducted a gene ontology analysis (ToppGene), using a cancer database to identify genes associated with DEK deficiency, which pinpointed several genes associated with cognitive-related diseases (i...
November 23, 2017: Neuroscience
https://www.readbyqxmd.com/read/29156535/hdacis-class-i-cancer-stem-cell-and-phytochemicals-cancer-therapy-and-prevention-implications
#12
REVIEW
Sahar Bayat, Mahmoud Shekari Khaniani, Jalal Choupani, Mohammad Reza Alivand, Sima Mansoori Derakhshan
Epigenetics is independent of the sequence events that physically affect the condensing of chromatin and genes expression. The unique epigenetic memories of various cells trigger exclusive gene expression profiling. According to different studies, the aberrant epigenetic signatures and impaired gene expression profiles are master occurrences in cancer cells in which oncogene and tumor suppressor genes are affected. Owing to the facts that epigenetic modifications are performed earlier than expression and are reversible, the epigenetic reprogramming of cancer cells could be applied potentially for their prevention, control, and therapy...
November 16, 2017: Biomedicine & Pharmacotherapy, Biomédecine & Pharmacothérapie
https://www.readbyqxmd.com/read/29133437/abnormal-microglia-and-enhanced-inflammation-related-gene-transcription-in-mice-with-conditional-deletion-of-ctcf-in-camk2a-cre-expressing-neurons
#13
Bryan E McGill, Ruteja A Barve, Susan E Maloney, Amy Strickland, Nicholas Rensing, Peter Wang, Michael Wong, Richard Head, David F Wozniak, Jeffrey Milbrandt
CCCTC-binding factor (CTCF) is an 11 zinc finger DNA-binding domain protein that regulates gene expression by modifying three dimensional chromatin structure. Human mutations in CTCF cause intellectual disability and autistic features. Knocking out Ctcf in mouse embryonic neurons is lethal by neonatal age, but the effects of CTCF deficiency in postnatal neurons are less well studied. We knocked out Ctcf postnatally in glutamatergic forebrain neurons under the control of Camk2a-CreCtcfloxP/loxP ;Camk2a-Cre+ (Ctcf CKO) mice of both sexes were viable and exhibited profound deficits in spatial learning/memory, impaired motor co-ordination, and decreased sociability by 4 months of age...
November 13, 2017: Journal of Neuroscience: the Official Journal of the Society for Neuroscience
https://www.readbyqxmd.com/read/29127660/exposure-to-a-sublethal-concentration-of-imidacloprid-and-the-side-effects-on-target-and-nontarget-organs-of-apis-mellifera-hymenoptera-apidae
#14
Aline Fernanda Catae, Thaisa Cristina Roat, Marcel Pratavieira, Anally Ribeiro da Silva Menegasso, Mario Sergio Palma, Osmar Malaspina
The use of insecticides has become increasingly frequent, and studies indicate that these compounds are involved in the intoxication of bees. Imidacloprid is a widely used neonicotinoid; thus, we have highlighted the importance of assessing its oral toxicity to Africanized bees and used transmission electron microscopy to investigate the sublethal effects in the brain, the target organ, and the midgut, responsible for the digestion/absorption of food. In addition, the distribution of proteins involved in important biological processes in the brain were evaluated on the 1st day of exposure by MALDI-imaging analysis...
November 10, 2017: Ecotoxicology
https://www.readbyqxmd.com/read/29101321/contribution-of-epigenetic-landscapes-and-transcription-factors-to-x-chromosome-reactivation-in-the-inner-cell-mass
#15
Maud Borensztein, Ikuhiro Okamoto, Laurène Syx, Guillaume Guilbaud, Christel Picard, Katia Ancelin, Rafael Galupa, Patricia Diabangouaya, Nicolas Servant, Emmanuel Barillot, Azim Surani, Mitinori Saitou, Chong-Jian Chen, Konstantinos Anastassiadis, Edith Heard
X-chromosome inactivation is established during early development. In mice, transcriptional repression of the paternal X-chromosome (Xp) and enrichment in epigenetic marks such as H3K27me3 is achieved by the early blastocyst stage. X-chromosome inactivation is then reversed in the inner cell mass. The mechanisms underlying Xp reactivation remain enigmatic. Using in vivo single-cell approaches (allele-specific RNAseq, nascent RNA-fluorescent in situ hybridization and immunofluorescence), we show here that different genes are reactivated at different stages, with more slowly reactivated genes tending to be enriched in H3meK27...
November 3, 2017: Nature Communications
https://www.readbyqxmd.com/read/29089052/epigenetic-control-of-epilepsy-target-genes-contributes-to-a-cellular-memory-of-epileptogenesis-in-cultured-rat-hippocampal-neurons
#16
K Kiese, J Jablonski, J Hackenbracht, J K Wrosch, T W Groemer, J Kornhuber, I Blümcke, K Kobow
Hypersynchronous neuronal excitation manifests clinically as seizure (ictogenesis), and may recur spontaneously and repetitively after a variable latency period (epileptogenesis). Despite tremendous research efforts to describe molecular pathways and signatures of epileptogenesis, molecular pathomechanisms leading to chronic epilepsy remain to be clarified. We hypothesized that epigenetic modifications may form the basis for a cellular memory of epileptogenesis, and used a primary neuronal cell culture model of the rat hippocampus to study the translation of massive neuronal excitation into persisting changes of epigenetic signatures and pro-epileptogenic target gene expression...
October 31, 2017: Acta Neuropathologica Communications
https://www.readbyqxmd.com/read/29078152/evolution-of-epigenetic-chromatin-states
#17
REVIEW
Philip Yuk Kwong Yung, Simon J Elsässer
The central dogma of gene expression entails the flow of genetic information from DNA to RNA, then to protein. Decades of studies on epigenetics have characterized an additional layer of information, where epigenetic states help to shape differential utilization of genetic information. Orchestrating conditional gene expressions to elicit a defined phenotype and function, epigenetics states distinguish different cell types or maintain a long-lived memory of past signals. Packaging the genetic information in the nucleus of the eukaryotic cell, chromatin provides a large regulatory repertoire that capacitates the genome to give rise to many distinct epigenomes...
October 24, 2017: Current Opinion in Chemical Biology
https://www.readbyqxmd.com/read/29072296/embryonic-epigenetic-reprogramming-by-a-pioneer-transcription-factor-in-plants
#18
Zeng Tao, Lisha Shen, Xiaofeng Gu, Yizhong Wang, Hao Yu, Yuehui He
Epigenetic modifications, including chromatin modifications and DNA methylation, have a central role in the regulation of gene expression in plants and animals. The transmission of epigenetic marks is crucial for certain genes to retain cell lineage-specific expression patterns and maintain cell fate. However, the marks that have accumulated at regulatory loci during growth and development or in response to environmental stimuli need to be deleted in gametes or embryos, particularly in organisms such as plants that do not set aside a germ line, to ensure the proper development of offspring...
November 2, 2017: Nature
https://www.readbyqxmd.com/read/29018328/intermittent-ethanol-during-adolescence-leads-to-lasting-behavioral-changes-in-adulthood-and-alters-gene-expression-and-histone-methylation-in-the-pfc
#19
Jennifer T Wolstenholme, Tariq Mahmood, Guy M Harris, Shahroze Abbas, Michael F Miles
Adolescents primarily consume alcohol in binges, which can be particularly harmful to the developing frontal cortex and increase risk for an adult alcohol use disorder. We conducted a study investigating immediate and long lasting changes to the prefrontal cortex (PFC) transcriptome to determine the molecular mechanisms underlying adult ethanol behavioral sensitivity following binge ethanol in adolescence. DBA/2J mice were orally dosed with 4 g/kg ethanol intermittently from day 29 to 42. Adolescent mice were tested for anxiety-like behavior and ethanol sensitivity using the loss of righting reflex task...
2017: Frontiers in Molecular Neuroscience
https://www.readbyqxmd.com/read/29017914/the-roles-of-class-i-histone-deacetylases-hdacs-in-memory-learning-and-executive-cognitive-functions-a-review
#20
REVIEW
Claudia Schmauss
Coordinated changes in gene expression are critical for synaptic plasticity supporting learning, memory, and optimal cognitive task performance. These gene expression changes are not only mediated by signaling pathways that activate transcription factors, but also by chromatin modifications that influence the accessibility of the transcriptional machinery to specific genomic regions. During the past decade, evidence accumulated that alterations in chromatin-based epigenetic regulation of gene expression are linked to cognitive dysfunctions in the ageing or neurodegenerating brain as well as to cognitive dysfunctions resulting from chronic stress exposure...
October 7, 2017: Neuroscience and Biobehavioral Reviews
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