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  • 1
    Publication Date: 2016-01-28
    Description: ATP-dependent chromatin remodellers allow access to DNA for transcription factors and the general transcription machinery, but whether mammalian chromatin remodellers target specific nucleosomes to regulate transcription is unclear. Here we present genome-wide remodeller-nucleosome interaction profiles for the chromatin remodellers Chd1, Chd2, Chd4, Chd6, Chd8, Chd9, Brg1 and Ep400 in mouse embryonic stem (ES) cells. These remodellers bind one or both full nucleosomes that flank micrococcal nuclease (MNase)-defined nucleosome-free promoter regions (NFRs), where they separate divergent transcription. Surprisingly, large CpG-rich NFRs that extend downstream of annotated transcriptional start sites are nevertheless bound by non-nucleosomal or subnucleosomal histone variants (H3.3 and H2A.Z) and marked by H3K4me3 and H3K27ac modifications. RNA polymerase II therefore navigates hundreds of base pairs of altered chromatin in the sense direction before encountering an MNase-resistant nucleosome at the 3' end of the NFR. Transcriptome analysis after remodeller depletion reveals reciprocal mechanisms of transcriptional regulation by remodellers. Whereas at active genes individual remodellers have either positive or negative roles via altering nucleosome stability, at polycomb-enriched bivalent genes the same remodellers act in an opposite manner. These findings indicate that remodellers target specific nucleosomes at the edge of NFRs, where they regulate ES cell transcriptional programs.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉de Dieuleveult, Maud -- Yen, Kuangyu -- Hmitou, Isabelle -- Depaux, Arnaud -- Boussouar, Faycal -- Dargham, Daria Bou -- Jounier, Sylvie -- Humbertclaude, Helene -- Ribierre, Florence -- Baulard, Celine -- Farrell, Nina P -- Park, Bongsoo -- Keime, Celine -- Carriere, Lucie -- Berlivet, Soizick -- Gut, Marta -- Gut, Ivo -- Werner, Michel -- Deleuze, Jean-Francois -- Olaso, Robert -- Aude, Jean-Christophe -- Chantalat, Sophie -- Pugh, B Franklin -- Gerard, Matthieu -- HG004160/HG/NHGRI NIH HHS/ -- R01 HG004160/HG/NHGRI NIH HHS/ -- England -- Nature. 2016 Feb 4;530(7588):113-6. doi: 10.1038/nature16505. Epub 2016 Jan 27.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Institute for Integrative Biology of the Cell (I2BC), IBITECS, CEA, CNRS, Universite Paris-Sud, Universite Paris-Saclay, 91198 Gif-sur-Yvette, France. ; Key Laboratory of Zebrafish Modeling and Drug Screening for Human Diseases of Guangdong Higher Education Institutes, Department of Developmental Biology, School of Basic Medical Sciences, Southern Medical University, Guangzhou 510515, China. ; Center for Eukaryotic Gene Regulation, Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA. ; INSERM, U823; Universite Grenoble Alpes; Institut Albert Bonniot Grenoble, 38700 Grenoble, France. ; Centre National de Genotypage, Institut de Genomique, CEA, 91057 Evry, France. ; IGBMC (Institut de Genetique et de Biologie Moleculaire et Cellulaire), INSERM, U964, CNRS, UMR7104, Universite de Strasbourg, 67404 Illkirch, France. ; Centre Nacional D'Analisi Genomica, 08028 Barcelona, Spain.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/26814966" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; *Chromatin Assembly and Disassembly ; DNA Helicases/metabolism ; DNA-Binding Proteins/*metabolism ; *Gene Expression Regulation ; Genome/*genetics ; Histones/metabolism ; Mice ; Micrococcal Nuclease/metabolism ; Mouse Embryonic Stem Cells/cytology/*metabolism ; Nuclear Proteins/metabolism ; Nucleosomes/*genetics/*metabolism ; Promoter Regions, Genetic/genetics ; RNA Polymerase II/metabolism ; Substrate Specificity ; Trans-Activators/metabolism ; Transcription Factors/metabolism ; Transcription Initiation Site
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 2
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    American Association for the Advancement of Science (AAAS)
    Publication Date: 2016-01-09
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Farrell, Anthony P -- Franklin, Craig E -- New York, N.Y. -- Science. 2016 Jan 8;351(6269):132-3. doi: 10.1126/science.351.6269.132-b.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Zoology, University of British Columbia, Vancouver, BC V6T1Z4, Canada. farrellt@mail.ubc.ca. ; School of Biological Sciences, The University of Queensland, St. Lucia, QLD 4072, Australia.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/26744399" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Birds/*classification ; *Climate Change ; *Endangered Species ; Fishes/*classification ; Mammals/*classification ; Turtles/*classification
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 3
    Publication Date: 2011-01-15
    Description: Long-term population viability of Fraser River sockeye salmon (Oncorhynchus nerka) is threatened by unusually high levels of mortality as they swim to their spawning areas before they spawn. Functional genomic studies on biopsied gill tissue from tagged wild adults that were tracked through ocean and river environments revealed physiological profiles predictive of successful migration and spawning. We identified a common genomic profile that was correlated with survival in each study. In ocean-tagged fish, a mortality-related genomic signature was associated with a 13.5-fold greater chance of dying en route. In river-tagged fish, the same genomic signature was associated with a 50% increase in mortality before reaching the spawning grounds in one of three stocks tested. At the spawning grounds, the same signature was associated with 3.7-fold greater odds of dying without spawning. Functional analysis raises the possibility that the mortality-related signature reflects a viral infection.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Miller, Kristina M -- Li, Shaorong -- Kaukinen, Karia H -- Ginther, Norma -- Hammill, Edd -- Curtis, Janelle M R -- Patterson, David A -- Sierocinski, Thomas -- Donnison, Louise -- Pavlidis, Paul -- Hinch, Scott G -- Hruska, Kimberly A -- Cooke, Steven J -- English, Karl K -- Farrell, Anthony P -- New York, N.Y. -- Science. 2011 Jan 14;331(6014):214-7. doi: 10.1126/science.1196901.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Molecular Genetics Section, Pacific Biological Station, 3190 Hammond Bay Road, Fisheries and Oceans Canada, Nanaimo, BC V9T 6N7, Canada. kristi.miller@dfo-mpo.gc.ca〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21233388" target="_blank"〉PubMed〈/a〉
    Keywords: *Animal Migration ; Animals ; Canada ; Female ; Fish Diseases/genetics/immunology/mortality ; *Gene Expression ; *Gene Expression Profiling ; Genome ; Gills ; Male ; Mortality ; Oligonucleotide Array Sequence Analysis ; Pacific Ocean ; Population Dynamics ; Principal Component Analysis ; Remote Sensing Technology ; *Reproduction ; Rivers ; Salmon/*genetics/*physiology ; Stress, Physiological ; Survival Analysis ; Virus Diseases/genetics/immunology/mortality/veterinary
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 4
    Publication Date: 2011-04-02
    Description: Climate change-induced increases in summer water temperature have been associated with elevated mortality of adult sockeye salmon (Oncorhynchus nerka) during river migration. We show that cardiorespiratory physiology varies at the population level among Fraser River sockeye salmon and relates to historical environmental conditions encountered while migrating. Fish from populations with more challenging migratory environments have greater aerobic scope, larger hearts, and better coronary supply. Furthermore, thermal optima for aerobic, cardiac, and heart rate scopes are consistent with the historic river temperature ranges for each population. This study suggests that physiological adaptation occurs at a very local scale, with population-specific thermal limits being set by physiological limitations in aerobic performance, possibly due to cardiac collapse at high temperatures.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Eliason, Erika J -- Clark, Timothy D -- Hague, Merran J -- Hanson, Linda M -- Gallagher, Zoe S -- Jeffries, Ken M -- Gale, Marika K -- Patterson, David A -- Hinch, Scott G -- Farrell, Anthony P -- New York, N.Y. -- Science. 2011 Apr 1;332(6025):109-12. doi: 10.1126/science.1199158.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Zoology, University of British Columbia, 6270 University Boulevard, Vancouver, BC, Canada, V6T 1Z4. eliason@zoology.ubc.ca〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21454790" target="_blank"〉PubMed〈/a〉
    Keywords: *Adaptation, Physiological ; Animal Migration ; Animals ; Climate Change ; Heart/physiology ; Population Dynamics ; Salmon/*physiology ; Species Specificity ; *Temperature
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 5
    Electronic Resource
    Electronic Resource
    Amsterdam : Elsevier
    Journal of Health Economics 1 (1982), S. 217-230 
    ISSN: 0167-6296
    Source: Elsevier Journal Backfiles on ScienceDirect 1907 - 2002
    Topics: Medicine , Economics
    Type of Medium: Electronic Resource
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  • 6
    ISSN: 1432-0428
    Keywords: Rhesus monkey ; streptozotocin ; food intake ; oestrogen ; menstrual cycles ; pregnancy
    Source: Springer Online Journal Archives 1860-2000
    Topics: Medicine
    Notes: Summary Food intake of control and streptozotocin-diabetic rhesus monkeys was measured during menstrual cycles and pregnancy. Intake of control monkeys was lower at the time of ovulation than during other phases of the menstrual cycle. Intake of control monkeys was also low during most of pregnancy, but this was accompanied by normal fetal growth and net maternal weight gain. Diabetic monkeys ate more than controls in all conditions and their intake did not vary reliably according to reproductive status. It is suggested that (1) oestrogen normally inhibits food intake during menstrual cycles and pregnancy, (2) food energy is utilized more efficiently during pregnancy than during non-pregnant states, and (3) the influence of oestrogen on food intake is either attenuated by insulinopenia or is obscured by the hyperphagia typically exhibited by the diabetic monkeys.
    Type of Medium: Electronic Resource
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  • 7
    ISSN: 0014-5793
    Source: Elsevier Journal Backfiles on ScienceDirect 1907 - 2002
    Topics: Biology , Chemistry and Pharmacology , Physics
    Type of Medium: Electronic Resource
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  • 8
    ISSN: 1476-4687
    Source: Nature Archives 1869 - 2009
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Notes: [Auszug] The complete (172,282 base pairs) nucleotide sequence of the B95-8 strain of Epstein–Barr virus has been established using the dideoxynucleotide/M13 sequencing procedure. Many RNA polymerase II promoters have been mapped and the mRNAs from these promoters have been assigned to the latent or ...
    Type of Medium: Electronic Resource
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  • 9
    Electronic Resource
    Electronic Resource
    Oxford [u.a.] : International Union of Crystallography (IUCr)
    Acta crystallographica 49 (1993), S. 609-612 
    ISSN: 1600-5759
    Source: Crystallography Journals Online : IUCR Backfile Archive 1948-2001
    Topics: Chemistry and Pharmacology , Geosciences , Physics
    Type of Medium: Electronic Resource
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  • 10
    Electronic Resource
    Electronic Resource
    s.l. : American Chemical Society
    Source: ACS Legacy Archives
    Topics: Chemistry and Pharmacology , Physics
    Type of Medium: Electronic Resource
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