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  • 1
    Publication Date: 2013-12-18
    Description: How biological systems generate reproducible patterns with high precision is a central question in science. The shoot apical meristem (SAM), a specialized tissue producing plant aerial organs, is a developmental system of choice to address this question. Organs are periodically initiated at the SAM at specific spatial positions and this spatiotemporal pattern defines phyllotaxis. Accumulation of the plant hormone auxin triggers organ initiation, whereas auxin depletion around organs generates inhibitory fields that are thought to be sufficient to maintain these patterns and their dynamics. Here we show that another type of hormone-based inhibitory fields, generated directly downstream of auxin by intercellular movement of the cytokinin signalling inhibitor ARABIDOPSIS HISTIDINE PHOSPHOTRANSFER PROTEIN 6 (AHP6), is involved in regulating phyllotactic patterns. We demonstrate that AHP6-based fields establish patterns of cytokinin signalling in the meristem that contribute to the robustness of phyllotaxis by imposing a temporal sequence on organ initiation. Our findings indicate that not one but two distinct hormone-based fields may be required for achieving temporal precision during formation of reiterative structures at the SAM, thus indicating an original mechanism for providing robustness to a dynamic developmental system.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Besnard, Fabrice -- Refahi, Yassin -- Morin, Valerie -- Marteaux, Benjamin -- Brunoud, Geraldine -- Chambrier, Pierre -- Rozier, Frederique -- Mirabet, Vincent -- Legrand, Jonathan -- Laine, Stephanie -- Thevenon, Emmanuel -- Farcot, Etienne -- Cellier, Coralie -- Das, Pradeep -- Bishopp, Anthony -- Dumas, Renaud -- Parcy, Francois -- Helariutta, Yka -- Boudaoud, Arezki -- Godin, Christophe -- Traas, Jan -- Guedon, Yann -- Vernoux, Teva -- England -- Nature. 2014 Jan 16;505(7483):417-21. doi: 10.1038/nature12791. Epub 2013 Dec 15.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Laboratoire de Reproduction et Developpement des Plantes, CNRS, INRA, ENS Lyon, UCBL, Universite de Lyon, 69364 Lyon, France [2] IBENS, ENS, 75005 Paris, France (F.B.); UMR CNRS 5534, Universite Claude Bernard Lyon I, Batiment Gregor Mendel, 16 rue Raphael Dubois, 69622 Villeurbanne, France (V.M.); University of Nottingham, University Park, Nottingham NG7 2RD, UK (E.F); University of Nottingham, Sutton Bonington LE12 5RD, UK (A.Bi.). ; Virtual Plants INRIA/CIRAD/INRA Project Team, UMR AGAP, Institut de Biologie Computationelle, 34095 Montpellier, France. ; 1] Laboratoire de Reproduction et Developpement des Plantes, CNRS, INRA, ENS Lyon, UCBL, Universite de Lyon, 69364 Lyon, France [2] IBENS, ENS, 75005 Paris, France (F.B.); UMR CNRS 5534, Universite Claude Bernard Lyon I, Batiment Gregor Mendel, 16 rue Raphael Dubois, 69622 Villeurbanne, France (V.M.); University of Nottingham, University Park, Nottingham NG7 2RD, UK (E.F); University of Nottingham, Sutton Bonington LE12 5RD, UK (A.Bi.). [3]. ; 1] Laboratoire de Reproduction et Developpement des Plantes, CNRS, INRA, ENS Lyon, UCBL, Universite de Lyon, 69364 Lyon, France [2]. ; Laboratoire de Reproduction et Developpement des Plantes, CNRS, INRA, ENS Lyon, UCBL, Universite de Lyon, 69364 Lyon, France. ; 1] Laboratoire de Reproduction et Developpement des Plantes, CNRS, INRA, ENS Lyon, UCBL, Universite de Lyon, 69364 Lyon, France [2] Laboratoire Joliot-Curie, CNRS, ENS Lyon, Universite de Lyon, 69364 Lyon, France. ; 1] Laboratoire de Reproduction et Developpement des Plantes, CNRS, INRA, ENS Lyon, UCBL, Universite de Lyon, 69364 Lyon, France [2] Virtual Plants INRIA/CIRAD/INRA Project Team, UMR AGAP, Institut de Biologie Computationelle, 34095 Montpellier, France [3] Laboratoire Joliot-Curie, CNRS, ENS Lyon, Universite de Lyon, 69364 Lyon, France. ; Laboratoire Physiologie Cellulaire et Vegetale, CEA, CNRS, INRA, UJF, 38041 Grenoble, France. ; 1] Virtual Plants INRIA/CIRAD/INRA Project Team, UMR AGAP, Institut de Biologie Computationelle, 34095 Montpellier, France [2] IBENS, ENS, 75005 Paris, France (F.B.); UMR CNRS 5534, Universite Claude Bernard Lyon I, Batiment Gregor Mendel, 16 rue Raphael Dubois, 69622 Villeurbanne, France (V.M.); University of Nottingham, University Park, Nottingham NG7 2RD, UK (E.F); University of Nottingham, Sutton Bonington LE12 5RD, UK (A.Bi.). ; 1] Institute of Biotechnology/Department of Biosciences, University of Helsinki, FIN-00014, Finland [2] IBENS, ENS, 75005 Paris, France (F.B.); UMR CNRS 5534, Universite Claude Bernard Lyon I, Batiment Gregor Mendel, 16 rue Raphael Dubois, 69622 Villeurbanne, France (V.M.); University of Nottingham, University Park, Nottingham NG7 2RD, UK (E.F); University of Nottingham, Sutton Bonington LE12 5RD, UK (A.Bi.). ; Institute of Biotechnology/Department of Biosciences, University of Helsinki, FIN-00014, Finland.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24336201" target="_blank"〉PubMed〈/a〉
    Keywords: Arabidopsis/anatomy & histology/cytology/*growth & development/*metabolism ; Arabidopsis Proteins/*metabolism ; *Biological Transport ; Cytokinins/*antagonists & inhibitors/metabolism ; Indoleacetic Acids/metabolism ; Meristem/metabolism ; Plant Growth Regulators/antagonists & inhibitors/metabolism ; Plant Shoots/metabolism ; *Signal Transduction
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  • 2
    Publication Date: 2013-12-07
    Description: The objective of science is to advance knowledge, primarily in two interlinked ways: circulating ideas, and defending or criticizing the ideas of others. Peer review acts as the gatekeeper to these mechanisms. Given the increasing concern surrounding the reproducibility of much published research, it is critical to understand whether peer review is intrinsically susceptible to failure, or whether other extrinsic factors are responsible that distort scientists' decisions. Here we show that even when scientists are motivated to promote the truth, their behaviour may be influenced, and even dominated, by information gleaned from their peers' behaviour, rather than by their personal dispositions. This phenomenon, known as herding, subjects the scientific community to an inherent risk of converging on an incorrect answer and raises the possibility that, under certain conditions, science may not be self-correcting. We further demonstrate that exercising some subjectivity in reviewer decisions, which serves to curb the herding process, can be beneficial for the scientific community in processing available information to estimate truth more accurately. By examining the impact of different models of reviewer decisions on the dynamic process of publication, and thereby on eventual aggregation of knowledge, we provide a new perspective on the ongoing discussion of how the peer-review process may be improved.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Park, In-Uck -- Peacey, Mike W -- Munafo, Marcus R -- MC_UU_12013/6/Medical Research Council/United Kingdom -- Cancer Research UK/United Kingdom -- British Heart Foundation/United Kingdom -- Medical Research Council/United Kingdom -- England -- Nature. 2014 Feb 6;506(7486):93-6. doi: 10.1038/nature12786. Epub 2013 Dec 4.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Department of Economics, University of Bristol, Bristol BS8 1TN, UK [2] Department of Economics, Sungkyunkwan University, Seoul 110-745, South Korea. ; 1] Department of Economics, University of Bristol, Bristol BS8 1TN, UK [2] Department of Economics, University of Bath, Bath BA2 7AY, UK. ; 1] MRC Integrative Epidemiology Unit (IEU), University of Bristol, Bristol BS8 1BN, UK [2] UK Centre for Tobacco and Alcohol Studies, University of Bristol, Bristol BS8 1TU, UK [3] School of Experimental Psychology, University of Bristol, Bristol BS8 1TU, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24305052" target="_blank"〉PubMed〈/a〉
    Keywords: *Bias (Epidemiology) ; *Decision Making ; Empirical Research ; Humans ; *Models, Theoretical ; Peer Group ; *Peer Review, Research/standards ; Research Personnel/*psychology/standards
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  • 3
    Publication Date: 2013-12-10
    Description: Evolution drives, and is driven by, demography. A genotype moulds its phenotype's age patterns of mortality and fertility in an environment; these two patterns in turn determine the genotype's fitness in that environment. Hence, to understand the evolution of ageing, age patterns of mortality and reproduction need to be compared for species across the tree of life. However, few studies have done so and only for a limited range of taxa. Here we contrast standardized patterns over age for 11 mammals, 12 other vertebrates, 10 invertebrates, 12 vascular plants and a green alga. Although it has been predicted that evolution should inevitably lead to increasing mortality and declining fertility with age after maturity, there is great variation among these species, including increasing, constant, decreasing, humped and bowed trajectories for both long- and short-lived species. This diversity challenges theoreticians to develop broader perspectives on the evolution of ageing and empiricists to study the demography of more species.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4157354/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4157354/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Jones, Owen R -- Scheuerlein, Alexander -- Salguero-Gomez, Roberto -- Camarda, Carlo Giovanni -- Schaible, Ralf -- Casper, Brenda B -- Dahlgren, Johan P -- Ehrlen, Johan -- Garcia, Maria B -- Menges, Eric S -- Quintana-Ascencio, Pedro F -- Caswell, Hal -- Baudisch, Annette -- Vaupel, James W -- P01 AG-031719/AG/NIA NIH HHS/ -- P01 AG031719/AG/NIA NIH HHS/ -- England -- Nature. 2014 Jan 9;505(7482):169-73. doi: 10.1038/nature12789. Epub 2013 Dec 8.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Max-Planck Odense Center on the Biodemography of Aging, Campusvej 55, 5230 Odense M, Denmark [2] Department of Biology, University of Southern Denmark, Campusvej 55, 5230 Odense M, Denmark [3]. ; 1] Max Planck Institute for Demographic Research, Konrad-Zuse-Strasse 1, 18057 Rostock, Germany [2]. ; 1] Max Planck Institute for Demographic Research, Konrad-Zuse-Strasse 1, 18057 Rostock, Germany [2] School of Biological Sciences, Centre for Biodiversity and Conservation Science, University of Queensland, Brisbane QLD 4072, Australia. ; Institut National d'Etudes Demographiques, 133 Boulevard Davout, 75980 Paris Cedex 20, France. ; Max Planck Institute for Demographic Research, Konrad-Zuse-Strasse 1, 18057 Rostock, Germany. ; Department of Biology, University of Pennsylvania, 433 South University Avenue, Philadelphia, Pennsylvania 19104-6018, USA. ; 1] Max-Planck Odense Center on the Biodemography of Aging, Campusvej 55, 5230 Odense M, Denmark [2] Department of Biology, University of Southern Denmark, Campusvej 55, 5230 Odense M, Denmark. ; Department of Ecology, Environment and Plant Sciences, Stockholm University, Lilla Frescativagen 5, 10691 Stockholm, Sweden. ; Pyrenean Institute of Ecology (CSIC), Avenida Montanana 1005, 50059 Zaragoza, Spain. ; Archbold Biological Station, 123 Main Drive, Venus, Florida 33960, USA. ; Department of Biology, University of Central Florida, 4110 Libra Drive, Orlando, Florida 32816-2368, USA. ; 1] Department of Biology, University of Southern Denmark, Campusvej 55, 5230 Odense M, Denmark [2] Max Planck Institute for Demographic Research, Konrad-Zuse-Strasse 1, 18057 Rostock, Germany [3] Woods Hole Oceanographic Institution, Biology Department MS-34, Woods Hole, Massachusetts 02543 USA [4] Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, PO Box 94248, 1090GE Amsterdam, The Netherlands. ; 1] Max-Planck Odense Center on the Biodemography of Aging, Campusvej 55, 5230 Odense M, Denmark [2] Max Planck Institute for Demographic Research, Konrad-Zuse-Strasse 1, 18057 Rostock, Germany [3] Duke Population Research Institute, Duke University, Durham, North Carolina 27705, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24317695" target="_blank"〉PubMed〈/a〉
    Keywords: Aging/*physiology ; Animals ; Biological Evolution ; Chlorophyta ; Fertility/*physiology ; Longevity/*physiology ; *Phylogeny ; Plants ; Reproduction/physiology
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  • 4
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    Nature Publishing Group (NPG)
    Publication Date: 2013-01-16
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Dusheck, Jennie -- England -- Nature. 2012 Nov 22;491(7425):S50-1.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23320286" target="_blank"〉PubMed〈/a〉
    Keywords: Biomechanical Phenomena ; Biomedical Research/economics/*trends ; Europe ; Humans ; Interdisciplinary Studies/*trends ; *Medical Oncology ; *Neoplasms/drug therapy/mortality/pathology ; *Physics ; United States
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  • 5
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    Nature Publishing Group (NPG)
    Publication Date: 2013-01-03
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2012 Dec 20;492(7429):311-2.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23281498" target="_blank"〉PubMed〈/a〉
    Keywords: Adult ; Child ; Child Mortality ; Evidence-Based Medicine/methods ; Global Health/*statistics & numerical data/trends ; Health Care Surveys ; Health Policy/*trends ; *Health Status ; *Health Surveys ; Humans ; Life Expectancy ; Malaria/mortality ; Maternal Mortality
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  • 6
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    Nature Publishing Group (NPG)
    Publication Date: 2013-01-03
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2012 Dec 20;492(7429):311.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23281497" target="_blank"〉PubMed〈/a〉
    Keywords: 2-Pyridinylmethylsulfinylbenzimidazoles ; Clinical Trials as Topic/statistics & numerical data ; Drug Approval/legislation & jurisprudence ; Drug Industry/economics/ethics/*legislation & jurisprudence ; Drug Prescriptions/standards ; *Freedom ; Humans ; Marketing/*ethics/*legislation & jurisprudence ; Off-Label Use/*ethics/*legislation & jurisprudence ; Patient Advocacy/legislation & jurisprudence ; Reproducibility of Results ; Sodium Oxybate ; United States ; United States Food and Drug Administration/legislation & jurisprudence
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  • 7
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    Nature Publishing Group (NPG)
    Publication Date: 2013-01-16
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Gatenby, Robert -- England -- Nature. 2012 Nov 22;491(7425):S55.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Departments of Radiology andIntegrated Mathematical Oncology at the H. Lee Moffitt CancerCenter in Tampa, Florida, USA.robert.gatenby@moffitt.org〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23320287" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Biological Evolution ; Biomedical Research/*methods ; Caves ; Fishes/genetics/physiology ; Humans ; *Models, Biological ; Molecular Biology ; Molecular Targeted Therapy ; *Neoplasms/genetics/metabolism/pathology ; Physics/*methods
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  • 8
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    Nature Publishing Group (NPG)
    Publication Date: 2013-01-16
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Bourzac, Katherine -- England -- Nature. 2012 Nov 22;491(7425):S58-60.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23320289" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Antineoplastic Agents/*administration & dosage/adverse effects/*pharmacokinetics ; Cisplatin/adverse effects/pharmacokinetics ; Clinical Trials as Topic ; Doxorubicin/administration & dosage/pharmacokinetics ; Drug Carriers/administration & dosage/*chemistry/*pharmacokinetics ; Drug Resistance, Neoplasm ; Humans ; Leukemia/drug therapy/metabolism ; Logic ; Nanomedicine/*methods ; Nanoparticles/administration & dosage/*chemistry ; Neoplasm Metastasis ; Neoplasms/*drug therapy/genetics ; Pancreatic Neoplasms/drug therapy ; RNA Interference ; RNA, Small Interfering/administration & dosage/genetics/pharmacokinetics ; Robotics ; Substrate Specificity
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  • 9
    Publication Date: 2013-05-31
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Weinberger, Daniel R -- England -- Nature. 2013 May 30;497(7451):565. doi: 10.1038/497565d.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23719455" target="_blank"〉PubMed〈/a〉
    Keywords: Humans ; Mental Disorders/*diagnosis/drug therapy/genetics/physiopathology
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  • 10
    Publication Date: 2013-02-22
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Brown, Peter -- England -- Nature. 2013 Feb 21;494(7437):316-7. doi: 10.1038/494316a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23426319" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Anthropology ; Australia ; Chromosomes, Human, Y/genetics ; Continental Population Groups/genetics ; DNA, Mitochondrial/genetics ; *Dogs/genetics ; Female ; Gene Flow/genetics ; History, Ancient ; Human Migration/*history ; Humans ; India ; Paleontology ; Papua New Guinea ; Phylogeny
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  • 11
    Publication Date: 2013-03-01
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kosik, Kenneth S -- England -- Nature. 2013 Mar 21;495(7441):322-4. doi: 10.1038/nature11956. Epub 2013 Feb 27.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23446351" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Female ; *Gene Expression Regulation ; Humans ; Male ; MicroRNAs/*metabolism ; RNA/*metabolism
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  • 12
    Publication Date: 2013-08-21
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ralph, Timothy C -- England -- Nature. 2013 Aug 15;500(7462):282-3. doi: 10.1038/500282a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23955227" target="_blank"〉PubMed〈/a〉
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  • 13
    Publication Date: 2013-04-13
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hamilton, Clive -- England -- Nature. 2013 Apr 11;496(7444):139. doi: 10.1038/496139a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Charles Sturt University, Canberra. e-mail@clivehamilton.com〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23579641" target="_blank"〉PubMed〈/a〉
    Keywords: Disclosure ; Engineering/economics/*ethics/*methods/standards ; *Ethics, Research ; Geography/economics/ethics/*methods ; Global Warming/economics/*prevention & control ; Meteorology/economics/ethics/*methods ; Ownership/economics ; Politics ; *Research/economics/manpower ; Research Personnel/economics/ethics ; *Social Control, Formal/methods
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  • 14
    Publication Date: 2013-11-08
    Description: Most large (over a kilometre in diameter) near-Earth asteroids are now known, but recognition that airbursts (or fireballs resulting from nuclear-weapon-sized detonations of meteoroids in the atmosphere) have the potential to do greater damage than previously thought has shifted an increasing portion of the residual impact risk (the risk of impact from an unknown object) to smaller objects. Above the threshold size of impactor at which the atmosphere absorbs sufficient energy to prevent a ground impact, most of the damage is thought to be caused by the airburst shock wave, but owing to lack of observations this is uncertain. Here we report an analysis of the damage from the airburst of an asteroid about 19 metres (17 to 20 metres) in diameter southeast of Chelyabinsk, Russia, on 15 February 2013, estimated to have an energy equivalent of approximately 500 (+/-100) kilotons of trinitrotoluene (TNT, where 1 kiloton of TNT = 4.185x10(12) joules). We show that a widely referenced technique of estimating airburst damage does not reproduce the observations, and that the mathematical relations based on the effects of nuclear weapons--almost always used with this technique--overestimate blast damage. This suggests that earlier damage estimates near the threshold impactor size are too high. We performed a global survey of airbursts of a kiloton or more (including Chelyabinsk), and find that the number of impactors with diameters of tens of metres may be an order of magnitude higher than estimates based on other techniques. This suggests a non-equilibrium (if the population were in a long-term collisional steady state the size-frequency distribution would either follow a single power law or there must be a size-dependent bias in other surveys) in the near-Earth asteroid population for objects 10 to 50 metres in diameter, and shifts more of the residual impact risk to these sizes.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Brown, P G -- Assink, J D -- Astiz, L -- Blaauw, R -- Boslough, M B -- Borovicka, J -- Brachet, N -- Brown, D -- Campbell-Brown, M -- Ceranna, L -- Cooke, W -- de Groot-Hedlin, C -- Drob, D P -- Edwards, W -- Evers, L G -- Garces, M -- Gill, J -- Hedlin, M -- Kingery, A -- Laske, G -- Le Pichon, A -- Mialle, P -- Moser, D E -- Saffer, A -- Silber, E -- Smets, P -- Spalding, R E -- Spurny, P -- Tagliaferri, E -- Uren, D -- Weryk, R J -- Whitaker, R -- Krzeminski, Z -- England -- Nature. 2013 Nov 14;503(7475):238-41. doi: 10.1038/nature12741. Epub 2013 Nov 6.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Department of Physics and Astronomy, University of Western Ontario, London, Ontario N6A 3K7, Canada [2] Centre for Planetary Science and Exploration, University of Western Ontario, London, Ontario N6A 5B7, Canada.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24196713" target="_blank"〉PubMed〈/a〉
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  • 15
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    Nature Publishing Group (NPG)
    Publication Date: 2013-01-16
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Gravitz, Lauren -- England -- Nature. 2012 Nov 22;491(7425):S49.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23320284" target="_blank"〉PubMed〈/a〉
    Keywords: *Biology ; Biomedical Research/manpower/*trends ; Humans ; Interdisciplinary Studies/*trends ; *Neoplasms/diagnosis/drug therapy/genetics/pathology ; *Physics
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  • 16
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    Nature Publishing Group (NPG)
    Publication Date: 2013-01-16
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Agus, David B -- Gell-Mann, Murray -- England -- Nature. 2012 Nov 22;491(7425):S61.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉University of Southern California's Center for Applied Molecular Medicine in Beverly Hills, USA. agus@usc.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23320291" target="_blank"〉PubMed〈/a〉
    Keywords: Biomedical Research/*methods ; *Concept Formation ; DNA/genetics ; Genetic Code ; Humans ; Medical Oncology ; Metagenome ; *Models, Biological ; Neoplasms/therapy ; Physics/*methods
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  • 17
    Publication Date: 2013-03-08
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Sleeboom-Faulkner, Margaret -- England -- Nature. 2013 Mar 7;495(7439):47. doi: 10.1038/495047b.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23467160" target="_blank"〉PubMed〈/a〉
    Keywords: Humans ; Medical Tourism/*legislation & jurisprudence ; Patient Safety/*legislation & jurisprudence ; Stem Cell Transplantation/*legislation & jurisprudence
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  • 18
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    Publication Date: 2013-04-02
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2013 Mar 28;495(7442):409-10.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23544197" target="_blank"〉PubMed〈/a〉
    Keywords: *Access to Information ; Attitude ; Data Collection ; Information Dissemination ; Internet/utilization ; Publishing/economics/*trends/utilization ; *Research/economics ; *Research Personnel/psychology ; *Specialization
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    Nature Publishing Group (NPG)
    Publication Date: 2013-02-08
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Brumfiel, Geoff -- England -- Nature. 2013 Feb 7;494(7435):16-7. doi: 10.1038/494016a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23389522" target="_blank"〉PubMed〈/a〉
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  • 20
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    Publication Date: 2013-04-02
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2013 Mar 28;495(7442):410.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23544198" target="_blank"〉PubMed〈/a〉
    Keywords: *Expeditions/economics ; Marine Biology/economics/instrumentation ; Oceanography/economics/*instrumentation ; *Ships/economics
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  • 21
    Publication Date: 2013-01-04
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Dessai, Suraje -- Afionis, Stavros -- Van Alstine, James -- England -- Nature. 2013 Jan 3;493(7430):26. doi: 10.1038/493026d.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23282356" target="_blank"〉PubMed〈/a〉
    Keywords: Conservation of Natural Resources/*legislation & jurisprudence/*methods ; Environmental Policy/*legislation & jurisprudence ; *Goals ; Humans ; *International Cooperation ; Science/*methods
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  • 22
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    Nature Publishing Group (NPG)
    Publication Date: 2013-01-25
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hamre, Kristin -- England -- Nature. 2013 Jan 24;493(7433):480. doi: 10.1038/493480c.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23344351" target="_blank"〉PubMed〈/a〉
    Keywords: Humans ; Obesity/*physiopathology ; Research/*trends
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  • 23
    Publication Date: 2013-01-29
    Description: Mechanical responsiveness is essential to all biological systems down to the level of tissues and cells. The intra- and extracellular mechanics of such systems are governed by a series of proteins, such as microtubules, actin, intermediate filaments and collagen. As a general design motif, these proteins self-assemble into helical structures and superstructures that differ in diameter and persistence length to cover the full mechanical spectrum. Gels of cytoskeletal proteins display particular mechanical responses (stress stiffening) that until now have been absent in synthetic polymeric and low-molar-mass gels. Here we present synthetic gels that mimic in nearly all aspects gels prepared from intermediate filaments. They are prepared from polyisocyanopeptides grafted with oligo(ethylene glycol) side chains. These responsive polymers possess a stiff and helical architecture, and show a tunable thermal transition where the chains bundle together to generate transparent gels at extremely low concentrations. Using characterization techniques operating at different length scales (for example, macroscopic rheology, atomic force microscopy and molecular force spectroscopy) combined with an appropriate theoretical network model, we establish the hierarchical relationship between the bulk mechanical properties and the single-molecule parameters. Our results show that to develop artificial cytoskeletal or extracellular matrix mimics, the essential design parameters are not only the molecular stiffness, but also the extent of bundling. In contrast to the peptidic materials, our polyisocyanide polymers are readily modified, giving a starting point for functional biomimetic hydrogels with potentially a wide variety of applications, in particular in the biomedical field.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kouwer, Paul H J -- Koepf, Matthieu -- Le Sage, Vincent A A -- Jaspers, Maarten -- van Buul, Arend M -- Eksteen-Akeroyd, Zaskia H -- Woltinge, Tim -- Schwartz, Erik -- Kitto, Heather J -- Hoogenboom, Richard -- Picken, Stephen J -- Nolte, Roeland J M -- Mendes, Eduardo -- Rowan, Alan E -- England -- Nature. 2013 Jan 31;493(7434):651-5. doi: 10.1038/nature11839. Epub 2013 Jan 23.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Radboud University Nijmegen, Institute for Molecules and Materials, Department of Molecular Materials, Heyendaalseweg 135, 6525 AJ Nijmegen, The Netherlands. p.kouwer@science.ru.nl〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23354048" target="_blank"〉PubMed〈/a〉
    Keywords: Biomimetic Materials/analysis/chemical synthesis/*chemistry ; Hydrogels/analysis/chemical synthesis/*chemistry ; Models, Theoretical ; Peptides/chemistry ; Polymers/analysis/chemistry ; Polyurethanes/chemistry ; Rheology ; Temperature
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  • 24
    Publication Date: 2013-10-25
    Description: Mutations in SHANK3 and large duplications of the region spanning SHANK3 both cause a spectrum of neuropsychiatric disorders, indicating that proper SHANK3 dosage is critical for normal brain function. However, SHANK3 overexpression per se has not been established as a cause of human disorders because 22q13 duplications involve several genes. Here we report that Shank3 transgenic mice modelling a human SHANK3 duplication exhibit manic-like behaviour and seizures consistent with synaptic excitatory/inhibitory imbalance. We also identified two patients with hyperkinetic disorders carrying the smallest SHANK3-spanning duplications reported so far. These findings indicate that SHANK3 overexpression causes a hyperkinetic neuropsychiatric disorder. To probe the mechanism underlying the phenotype, we generated a Shank3 in vivo interactome and found that Shank3 directly interacts with the Arp2/3 complex to increase F-actin levels in Shank3 transgenic mice. The mood-stabilizing drug valproate, but not lithium, rescues the manic-like behaviour of Shank3 transgenic mice raising the possibility that this hyperkinetic disorder has a unique pharmacogenetic profile.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3923348/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3923348/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Han, Kihoon -- Holder, J Lloyd Jr -- Schaaf, Christian P -- Lu, Hui -- Chen, Hongmei -- Kang, Hyojin -- Tang, Jianrong -- Wu, Zhenyu -- Hao, Shuang -- Cheung, Sau Wai -- Yu, Peng -- Sun, Hao -- Breman, Amy M -- Patel, Ankita -- Lu, Hui-Chen -- Zoghbi, Huda Y -- 1R01NS070302/NS/NINDS NIH HHS/ -- 2T32NS043124/NS/NINDS NIH HHS/ -- P30HD024064/HD/NICHD NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2013 Nov 7;503(7474):72-7. doi: 10.1038/nature12630. Epub 2013 Oct 23.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA [2] Howard Hughes Medical Institute, Baylor College of Medicine, Houston, Texas 77030, USA [3] Jan and Dan Duncan Neurological Research Institute at Texas Children's Hospital, Houston, Texas 77030, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24153177" target="_blank"〉PubMed〈/a〉
    Keywords: Actin-Related Protein 2-3 Complex/metabolism ; Actins/metabolism ; Adult ; Animals ; Behavior, Animal ; Bipolar Disorder/*drug therapy/genetics/*physiopathology ; Chromosomes, Human, Pair 22/genetics ; Disease Models, Animal ; Excitatory Postsynaptic Potentials ; Female ; Gene Dosage/genetics ; Gene Expression/genetics ; Genes, Duplicate/genetics ; Humans ; Hyperkinesis/genetics/physiopathology ; Inhibitory Postsynaptic Potentials ; Lithium/pharmacology ; Male ; Mice ; Mice, Transgenic ; Nerve Tissue Proteins/*genetics/*metabolism ; Seizures/genetics ; Valproic Acid/pharmacology/therapeutic use
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    Nature Publishing Group (NPG)
    Publication Date: 2013-02-01
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Brumfiel, Geoff -- England -- Nature. 2013 Jan 31;493(7434):586. doi: 10.1038/493586a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23364716" target="_blank"〉PubMed〈/a〉
    Keywords: Financing, Organized/economics ; Governing Board/economics/organization & administration ; Great Britain ; Research/*economics
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    Nature Publishing Group (NPG)
    Publication Date: 2013-08-30
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kratky, Christoph -- England -- Nature. 2013 Aug 29;500(7464):503. doi: 10.1038/500503a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉University of Graz, Austria. christoph.kratky@uni-graz.at〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23985837" target="_blank"〉PubMed〈/a〉
    Keywords: *Access to Information ; Europe ; Periodicals as Topic/economics ; *Research/economics ; Research Support as Topic
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  • 27
    Publication Date: 2013-03-12
    Description: CLP1 was the first mammalian RNA kinase to be identified. However, determining its in vivo function has been elusive. Here we generated kinase-dead Clp1 (Clp1(K/K)) mice that show a progressive loss of spinal motor neurons associated with axonal degeneration in the peripheral nerves and denervation of neuromuscular junctions, resulting in impaired motor function, muscle weakness, paralysis and fatal respiratory failure. Transgenic rescue experiments show that CLP1 functions in motor neurons. Mechanistically, loss of CLP1 activity results in accumulation of a novel set of small RNA fragments, derived from aberrant processing of tyrosine pre-transfer RNA. These tRNA fragments sensitize cells to oxidative-stress-induced p53 (also known as TRP53) activation and p53-dependent cell death. Genetic inactivation of p53 rescues Clp1(K/K) mice from the motor neuron loss, muscle denervation and respiratory failure. Our experiments uncover a mechanistic link between tRNA processing, formation of a new RNA species and progressive loss of lower motor neurons regulated by p53.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3674495/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3674495/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hanada, Toshikatsu -- Weitzer, Stefan -- Mair, Barbara -- Bernreuther, Christian -- Wainger, Brian J -- Ichida, Justin -- Hanada, Reiko -- Orthofer, Michael -- Cronin, Shane J -- Komnenovic, Vukoslav -- Minis, Adi -- Sato, Fuminori -- Mimata, Hiromitsu -- Yoshimura, Akihiko -- Tamir, Ido -- Rainer, Johannes -- Kofler, Reinhard -- Yaron, Avraham -- Eggan, Kevin C -- Woolf, Clifford J -- Glatzel, Markus -- Herbst, Ruth -- Martinez, Javier -- Penninger, Josef M -- K99NS077435-01A1/NS/NINDS NIH HHS/ -- NS038253/NS/NINDS NIH HHS/ -- P 19223/Austrian Science Fund FWF/Austria -- P 21667/Austrian Science Fund FWF/Austria -- R00 NS077435/NS/NINDS NIH HHS/ -- R01 NS038253/NS/NINDS NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2013 Mar 28;495(7442):474-80. doi: 10.1038/nature11923. Epub 2013 Mar 10.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉IMBA, Institute of Molecular Biotechnology of the Austrian Academy of Sciences, Vienna 1030, Austria.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23474986" target="_blank"〉PubMed〈/a〉
    Keywords: Amyotrophic Lateral Sclerosis ; Animals ; Animals, Newborn ; Axons/metabolism/pathology ; Cell Death ; Diaphragm/innervation ; Embryo Loss ; Embryo, Mammalian/metabolism/pathology ; Exons/genetics ; Female ; Fibroblasts ; Male ; Mice ; Mice, Inbred C57BL ; Mice, Knockout ; Mice, Transgenic ; Motor Neurons/*metabolism/*pathology ; Muscular Atrophy, Spinal ; Neuromuscular Diseases/metabolism/pathology ; Oxidative Stress ; RNA Processing, Post-Transcriptional ; RNA, Transfer, Tyr/genetics/*metabolism ; Respiration ; Spinal Nerves/cytology ; Transcription Factors/deficiency/*metabolism ; Tumor Suppressor Protein p53/metabolism ; Tyrosine/genetics/metabolism
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    Publication Date: 2013-03-30
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2013 Mar 28;495(7442):425. doi: 10.1038/495425a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23538807" target="_blank"〉PubMed〈/a〉
    Keywords: Access to Information/legislation & jurisprudence ; Archives ; Books ; Great Britain ; Libraries/trends ; Licensure/economics/trends ; Publishing/economics/legislation & jurisprudence/*trends ; Research Personnel ; *Science/legislation & jurisprudence ; United States
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  • 29
    Publication Date: 2013-06-07
    Description: Since the 2007 Intergovernmental Panel on Climate Change Fourth Assessment Report, new observations of ice-sheet mass balance and improved computer simulations of ice-sheet response to continuing climate change have been published. Whereas Greenland is losing ice mass at an increasing pace, current Antarctic ice loss is likely to be less than some recently published estimates. It remains unclear whether East Antarctica has been gaining or losing ice mass over the past 20 years, and uncertainties in ice-mass change for West Antarctica and the Antarctic Peninsula remain large. We discuss the past six years of progress and examine the key problems that remain.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hanna, Edward -- Navarro, Francisco J -- Pattyn, Frank -- Domingues, Catia M -- Fettweis, Xavier -- Ivins, Erik R -- Nicholls, Robert J -- Ritz, Catherine -- Smith, Ben -- Tulaczyk, Slawek -- Whitehouse, Pippa L -- Zwally, H Jay -- England -- Nature. 2013 Jun 6;498(7452):51-9. doi: 10.1038/nature12238.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Geography, University of Sheffield, Sheffield S10 2TN, UK. ehanna@sheffield.ac.uk〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23739423" target="_blank"〉PubMed〈/a〉
    Keywords: Air ; Antarctic Regions ; Climate Change/*statistics & numerical data ; Computer Simulation ; Greenland ; *Ice Cover ; Snow ; Temperature ; *Uncertainty
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    Publication Date: 2013-11-15
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Krause, E Tobias -- England -- Nature. 2013 Nov 14;503(7475):198. doi: 10.1038/503198b.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Bielefeld University, Germany.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24226878" target="_blank"〉PubMed〈/a〉
    Keywords: *Evaluation Studies as Topic ; Research/*standards
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    Publication Date: 2013-07-28
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Mole, Beth -- England -- Nature. 2013 Jul 25;499(7459):398-400. doi: 10.1038/499398a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23887415" target="_blank"〉PubMed〈/a〉
    Keywords: Agriculture ; Animals ; Animals, Domestic/*microbiology/virology ; Anti-Bacterial Agents/pharmacology/supply & distribution ; European Union ; Fomites/microbiology/statistics & numerical data ; Humans ; Iowa/epidemiology ; Meat/*microbiology ; Methicillin Resistance ; Methicillin-Resistant Staphylococcus aureus/classification/genetics/*isolation & ; purification/pathogenicity ; Staphylococcal Infections/epidemiology/microbiology/*transmission/*veterinary ; Swine/microbiology/virology ; Swine Diseases/microbiology/transmission/virology ; Zoonoses/epidemiology/*microbiology/*transmission/virology
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    Publication Date: 2013-03-26
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2013 Mar 21;495(7441):281-2.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23527395" target="_blank"〉PubMed〈/a〉
    Keywords: Commerce/*ethics ; *Conservation of Natural Resources ; *Endangered Species
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  • 33
    Publication Date: 2013-12-07
    Description: Sudden beaching of huge seaweed masses smother the coastline and form rotting piles on the shore. The number of reports of these events in previously unaffected areas has increased worldwide in recent years. These 'seaweed tides' can harm tourism-based economies, smother aquaculture operations or disrupt traditional artisanal fisheries. Coastal eutrophication is the obvious, ultimate explanation for the increase in seaweed biomass, but the proximate processes that are responsible for individual beaching events are complex and require dedicated study to develop effective mitigation strategies. Harvesting the macroalgae, a valuable raw material, before they beach could well be developed into an effective solution.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Smetacek, Victor -- Zingone, Adriana -- England -- Nature. 2013 Dec 5;504(7478):84-8. doi: 10.1038/nature12860.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research, Am Handelshafen 12, 27570 Bremerhaven, Germany.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24305152" target="_blank"〉PubMed〈/a〉
    Keywords: Ecosystem ; Sargassum/*physiology ; Seaweed/*physiology ; Tidal Waves ; Ulva/*physiology
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  • 34
    Publication Date: 2013-08-24
    Description: The RAG1/RAG2 endonuclease (RAG) initiates the V(D)J recombination reaction that assembles immunoglobulin heavy (IgH) and light (IgL) chain variable region exons from germline gene segments to generate primary antibody repertoires. IgH V(D)J assembly occurs in progenitor (pro-) B cells followed by that of IgL in precursor (pre-) B cells. Expression of IgH mu and IgL (Igkappa or Iglambda) chains generates IgM, which is expressed on immature B cells as the B-cell antigen-binding receptor (BCR). Rag expression can continue in immature B cells, allowing continued Igkappa V(D)J recombination that replaces the initial VkappaJkappa exon with one that generates a new specificity. This 'receptor editing' process, which can also lead to Iglambda V(D)J recombination and expression, provides a mechanism whereby antigen encounter at the Rag-expressing immature B-cell stage helps shape pre-immune BCR repertoires. As the major site of postnatal B-cell development, the bone marrow is the principal location of primary immunoglobulin repertoire diversification in mice. Here we report that early B-cell development also occurs within the mouse intestinal lamina propria (LP), where the associated V(D)J recombination/receptor editing processes modulate primary LP immunoglobulin repertoires. At weanling age in normally housed mice, the LP contains a population of Rag-expressing B-lineage cells that harbour intermediates indicative of ongoing V(D)J recombination and which contain cells with pro-B, pre-B and editing phenotypes. Consistent with LP-specific receptor editing, Rag-expressing LP B-lineage cells have similar VH repertoires, but significantly different Vkappa repertoires, compared to those of Rag2-expressing bone marrow counterparts. Moreover, colonization of germ-free mice leads to an increased ratio of Iglambda-expressing versus Igkappa-expressing B cells specifically in the LP. We conclude that B-cell development occurs in the intestinal mucosa, where it is regulated by extracellular signals from commensal microbes that influence gut immunoglobulin repertoires.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3807868/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3807868/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Wesemann, Duane R -- Portuguese, Andrew J -- Meyers, Robin M -- Gallagher, Michael P -- Cluff-Jones, Kendra -- Magee, Jennifer M -- Panchakshari, Rohit A -- Rodig, Scott J -- Kepler, Thomas B -- Alt, Frederick W -- AI020047/AI/NIAID NIH HHS/ -- AI89972/AI/NIAID NIH HHS/ -- HHSN272201000053C/PHS HHS/ -- K08 AI089972/AI/NIAID NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2013 Sep 5;501(7465):112-5. doi: 10.1038/nature12496. Epub 2013 Aug 21.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Program in Cellular and Molecular Medicine and Department of Medicine, Children's Hospital Boston, Boston, Massachusetts 02115, USA. dwesemann@research.bwh.harvard.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23965619" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; B-Lymphocytes/*cytology/*immunology/metabolism ; Bone Marrow Cells/cytology/immunology ; *Cell Lineage ; DNA-Binding Proteins/genetics/metabolism ; Gene Rearrangement, B-Lymphocyte/genetics ; Germ-Free Life ; Immunoglobulins/genetics/immunology ; Intestinal Mucosa/*cytology/*immunology ; Mice ; Precursor Cells, B-Lymphoid/cytology/metabolism ; Symbiosis ; Weaning
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  • 35
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    Nature Publishing Group (NPG)
    Publication Date: 2013-10-11
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉DeWeerdt, Sarah -- England -- Nature. 2013 Oct 10;502(7470):S8-9. doi: 10.1038/502S8a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24108081" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; BCG Vaccine/immunology ; Clinical Trials as Topic ; Humans ; Immunity, Cellular ; Immunity, Humoral ; Tuberculosis Vaccines/administration & dosage/*immunology/*standards ; Tuberculosis, Pulmonary/immunology/*prevention & control
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  • 36
    Publication Date: 2013-09-06
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Rathinam, Vijay A K -- Fitzgerald, Katherine A -- England -- Nature. 2013 Sep 12;501(7466):173-5. doi: 10.1038/nature12556. Epub 2013 Sep 4.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24005321" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Caspases/metabolism ; Cytoplasm/immunology/*metabolism ; Gram-Negative Bacteria/*immunology ; Humans ; Immunity, Innate ; Inflammasomes/immunology/metabolism ; Lipopolysaccharides/analysis/*immunology ; Mice ; Toll-Like Receptor 4
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  • 37
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    Nature Publishing Group (NPG)
    Publication Date: 2013-07-28
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Smith, Caitlin -- England -- Nature. 2013 Jul 25;499(7459):505-8. doi: 10.1038/499505a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23887432" target="_blank"〉PubMed〈/a〉
    Keywords: Cell Movement/drug effects ; Cell Separation/instrumentation/methods ; Cell Shape ; Drug Resistance, Neoplasm/*drug effects/genetics ; Humans ; Melanoma/pathology ; Microscopy, Confocal/methods ; Neoplasm Metastasis/drug therapy/pathology ; Neoplasms/*drug therapy/genetics/*pathology ; RNA, Messenger/analysis ; RNA, Neoplasm/analysis ; Secondary Prevention ; Single-Cell Analysis
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  • 38
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    Nature Publishing Group (NPG)
    Publication Date: 2013-12-07
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Westly, Erica -- England -- Nature. 2013 Dec 5;504(7478):22-3. doi: 10.1038/504022a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24305135" target="_blank"〉PubMed〈/a〉
    Keywords: *Cause of Death ; Female ; Global Health/*statistics & numerical data ; Humans ; India/epidemiology ; Interviews as Topic ; Male ; Rural Population ; Urban Population
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  • 39
    Publication Date: 2013-08-02
    Description: Globular clusters trace the formation history of the spheroidal components of our Galaxy and other galaxies, which represent the bulk of star formation over the history of the Universe. The clusters exhibit a range of metallicities (abundances of elements heavier than helium), with metal-poor clusters dominating the stellar halo of the Galaxy, and higher-metallicity clusters found within the inner Galaxy, associated with the stellar bulge, or the thick disk. Age differences between these clusters can indicate the sequence in which the components of the Galaxy formed, and in particular which clusters were formed outside the Galaxy and were later engulfed along with their original host galaxies, and which were formed within it. Here we report an absolute age of 9.9 +/- 0.7 billion years (at 95 per cent confidence) for the metal-rich globular cluster 47 Tucanae, determined by modelling the properties of the cluster's white-dwarf cooling sequence. This is about two billion years younger than has been inferred for the metal-poor cluster NGC 6397 from the same models, and provides quantitative evidence that metal-rich clusters like 47 Tucanae formed later than metal-poor halo clusters like NGC 6397.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hansen, B M S -- Kalirai, J S -- Anderson, J -- Dotter, A -- Richer, H B -- Rich, R M -- Shara, M M -- Fahlman, G G -- Hurley, J R -- King, I R -- Reitzel, D -- Stetson, P B -- England -- Nature. 2013 Aug 1;500(7460):51-3. doi: 10.1038/nature12334.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Division of Astronomy, University of California Los Angeles, Los Angeles, California 90095, USA. hansen@astro.ucla.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23903747" target="_blank"〉PubMed〈/a〉
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  • 40
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    Nature Publishing Group (NPG)
    Publication Date: 2013-03-16
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2013 Mar 14;495(7440):142.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23495394" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Biomedical Research/economics ; Budgets ; *Goals ; Health Education/*economics/organization & administration ; Humans ; National Cancer Institute (U.S.)/*economics/*organization & administration ; *Neoplasms/economics/epidemiology/prevention & control/therapy ; United States
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  • 41
    Publication Date: 2013-09-13
    Description: Established infections with the human and simian immunodeficiency viruses (HIV and SIV, respectively) are thought to be permanent with even the most effective immune responses and antiretroviral therapies only able to control, but not clear, these infections. Whether the residual virus that maintains these infections is vulnerable to clearance is a question of central importance to the future management of millions of HIV-infected individuals. We recently reported that approximately 50% of rhesus macaques (RM; Macaca mulatta) vaccinated with SIV protein-expressing rhesus cytomegalovirus (RhCMV/SIV) vectors manifest durable, aviraemic control of infection with the highly pathogenic strain SIVmac239 (ref. 5). Here we show that regardless of the route of challenge, RhCMV/SIV vector-elicited immune responses control SIVmac239 after demonstrable lymphatic and haematogenous viral dissemination, and that replication-competent SIV persists in several sites for weeks to months. Over time, however, protected RM lost signs of SIV infection, showing a consistent lack of measurable plasma- or tissue-associated virus using ultrasensitive assays, and a loss of T-cell reactivity to SIV determinants not in the vaccine. Extensive ultrasensitive quantitative PCR and quantitative PCR with reverse transcription analyses of tissues from RhCMV/SIV vector-protected RM necropsied 69-172 weeks after challenge did not detect SIV RNA or DNA sequences above background levels, and replication-competent SIV was not detected in these RM by extensive co-culture analysis of tissues or by adoptive transfer of 60 million haematolymphoid cells to naive RM. These data provide compelling evidence for progressive clearance of a pathogenic lentiviral infection, and suggest that some lentiviral reservoirs may be susceptible to the continuous effector memory T-cell-mediated immune surveillance elicited and maintained by cytomegalovirus vectors.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3849456/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3849456/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hansen, Scott G -- Piatak, Michael Jr -- Ventura, Abigail B -- Hughes, Colette M -- Gilbride, Roxanne M -- Ford, Julia C -- Oswald, Kelli -- Shoemaker, Rebecca -- Li, Yuan -- Lewis, Matthew S -- Gilliam, Awbrey N -- Xu, Guangwu -- Whizin, Nathan -- Burwitz, Benjamin J -- Planer, Shannon L -- Turner, John M -- Legasse, Alfred W -- Axthelm, Michael K -- Nelson, Jay A -- Fruh, Klaus -- Sacha, Jonah B -- Estes, Jacob D -- Keele, Brandon F -- Edlefsen, Paul T -- Lifson, Jeffrey D -- Picker, Louis J -- HHSN261200800001E/PHS HHS/ -- P01 AI094417/AI/NIAID NIH HHS/ -- P51OD011092/OD/NIH HHS/ -- R01 AI060392/AI/NIAID NIH HHS/ -- R01 DE021291/DE/NIDCR NIH HHS/ -- R37 AI054292/AI/NIAID NIH HHS/ -- U19 AI095985/AI/NIAID NIH HHS/ -- U19 AI096109/AI/NIAID NIH HHS/ -- U24 OD010850/OD/NIH HHS/ -- U42 OD010426/OD/NIH HHS/ -- England -- Nature. 2013 Oct 3;502(7469):100-4. doi: 10.1038/nature12519. Epub 2013 Sep 11.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Vaccine and Gene Therapy Institute and Oregon National Primate Research Center, Oregon Health & Science University, Beaverton, Oregon 97006, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24025770" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Cytomegalovirus/genetics/immunology ; Female ; Macaca mulatta ; Male ; Molecular Sequence Data ; SAIDS Vaccines/*immunology ; Simian Acquired Immunodeficiency Syndrome/*prevention & control/virology ; Simian Immunodeficiency Virus/*immunology ; Time Factors ; Vaccines, Attenuated/immunology ; Viral Load ; Virus Replication/physiology
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  • 42
    Publication Date: 2013-12-20
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Monastersky, Richard -- England -- Nature. 2013 Dec 19;504(7480):339-40. doi: 10.1038/504339a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24352270" target="_blank"〉PubMed〈/a〉
    Keywords: Carbon Dioxide/analysis ; *Carbon Sequestration ; Geologic Sediments/*analysis ; Global Warming/*prevention & control ; *Oceans and Seas
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  • 43
    Publication Date: 2013-04-20
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Wheeler, Quentin -- Assis, Leandro -- Rieppel, Olivier -- England -- Nature. 2013 Apr 18;496(7445):295-6. doi: 10.1038/496295a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Schools of Sustainability and Life Sciences, Arizona State University, Tempe, Arizona, USA. quentin.wheeler@asu.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23598324" target="_blank"〉PubMed〈/a〉
    Keywords: Adaptation, Physiological ; Animals ; Classification/*methods ; Entomology/history ; Evolution, Molecular ; Germany ; History, 20th Century ; Paleontology ; *Phylogeny ; Species Specificity
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  • 44
    Publication Date: 2013-08-27
    Description: Early sensory experience instructs the maturation of neural circuitry in the cortex. This has been studied extensively in the primary visual cortex, in which loss of vision to one eye permanently degrades cortical responsiveness to that eye, a phenomenon known as ocular dominance plasticity (ODP). Cortical inhibition mediates this process, but the precise role of specific classes of inhibitory neurons in ODP is controversial. Here we report that evoked firing rates of binocular excitatory neurons in the primary visual cortex immediately drop by half when vision is restricted to one eye, but gradually return to normal over the following twenty-four hours, despite the fact that vision remains restricted to one eye. This restoration of binocular-like excitatory firing rates after monocular deprivation results from a rapid, although transient, reduction in the firing rates of fast-spiking, parvalbumin-positive (PV) interneurons, which in turn can be attributed to a decrease in local excitatory circuit input onto PV interneurons. This reduction in PV-cell-evoked responses after monocular lid suture is restricted to the critical period for ODP and appears to be necessary for subsequent shifts in excitatory ODP. Pharmacologically enhancing inhibition at the time of sight deprivation blocks ODP and, conversely, pharmacogenetic reduction of PV cell firing rates can extend the critical period for ODP. These findings define the microcircuit changes initiating competitive plasticity during critical periods of cortical development. Moreover, they show that the restoration of evoked firing rates of layer 2/3 pyramidal neurons by PV-specific disinhibition is a key step in the progression of ODP.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3962838/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3962838/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kuhlman, Sandra J -- Olivas, Nicholas D -- Tring, Elaine -- Ikrar, Taruna -- Xu, Xiangmin -- Trachtenberg, Joshua T -- EY016052/EY/NEI NIH HHS/ -- NS078434/NS/NINDS NIH HHS/ -- R00 DA023700/DA/NIDA NIH HHS/ -- R01 EY023871/EY/NEI NIH HHS/ -- R01 NS078434/NS/NINDS NIH HHS/ -- England -- Nature. 2013 Sep 26;501(7468):543-6. doi: 10.1038/nature12485. Epub 2013 Aug 25.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Neurobiology, David Geffen School of Medicine, University of California, Los Angeles, California 90048, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23975100" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; *Critical Period (Psychology) ; Dominance, Ocular/drug effects/*physiology ; Female ; Interneurons/cytology/drug effects ; Lasers ; Male ; Mice ; *Neural Inhibition/drug effects ; Neuronal Plasticity/drug effects/*physiology ; Parvalbumins/metabolism ; Photic Stimulation ; Sensory Deprivation/physiology ; Vision, Binocular/drug effects/physiology ; Vision, Monocular/drug effects/*physiology ; Visual Cortex/cytology/drug effects/*physiology
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  • 45
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    Publication Date: 2013-03-09
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2013 Mar 7;495(7439):5.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23472264" target="_blank"〉PubMed〈/a〉
    Keywords: Child ; Child Care ; Education, Graduate/statistics & numerical data ; Europe ; Foundations/economics/organization & administration ; Germany ; Humans ; Internet ; Periodicals as Topic ; Research Personnel/economics/education/*statistics & numerical data ; Science/*manpower ; Sex Distribution ; Sexism/*statistics & numerical data ; United States ; Women's Rights/*statistics & numerical data
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  • 46
    Publication Date: 2013-10-11
    Description: DNA methylation was first described almost a century ago; however, the rules governing its establishment and maintenance remain elusive. Here we present data demonstrating that active transcription regulates levels of genomic methylation. We identify a novel RNA arising from the CEBPA gene locus that is critical in regulating the local DNA methylation profile. This RNA binds to DNMT1 and prevents CEBPA gene locus methylation. Deep sequencing of transcripts associated with DNMT1 combined with genome-scale methylation and expression profiling extend the generality of this finding to numerous gene loci. Collectively, these results delineate the nature of DNMT1-RNA interactions and suggest strategies for gene-selective demethylation of therapeutic targets in human diseases.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3870304/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3870304/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Di Ruscio, Annalisa -- Ebralidze, Alexander K -- Benoukraf, Touati -- Amabile, Giovanni -- Goff, Loyal A -- Terragni, Jolyon -- Figueroa, Maria Eugenia -- De Figueiredo Pontes, Lorena Lobo -- Alberich-Jorda, Meritxell -- Zhang, Pu -- Wu, Mengchu -- D'Alo, Francesco -- Melnick, Ari -- Leone, Giuseppe -- Ebralidze, Konstantin K -- Pradhan, Sriharsa -- Rinn, John L -- Tenen, Daniel G -- CA118316/CA/NCI NIH HHS/ -- CA66996/CA/NCI NIH HHS/ -- HL56745/HL/NHLBI NIH HHS/ -- P01 CA066996/CA/NCI NIH HHS/ -- R01 CA118316/CA/NCI NIH HHS/ -- R01 HL056745/HL/NHLBI NIH HHS/ -- R01 HL112719/HL/NHLBI NIH HHS/ -- T32 HL007917-11A1/HL/NHLBI NIH HHS/ -- England -- Nature. 2013 Nov 21;503(7476):371-6. doi: 10.1038/nature12598. Epub 2013 Oct 9.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Harvard Stem Cell Institute, Harvard Medical School, Boston, Massachusetts 02115, USA [2] Beth Israel Deaconess Medical Center, Boston, Massachusetts 02115, USA [3] Universita Cattolica del Sacro Cuore, Institute of Hematology, L.go A. Gemelli 8, Rome 00168, Italy [4].〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24107992" target="_blank"〉PubMed〈/a〉
    Keywords: Base Sequence ; CCAAT-Enhancer-Binding Proteins/*genetics ; Cell Line ; DNA/genetics/metabolism ; DNA (Cytosine-5-)-Methyltransferase/*metabolism ; DNA Methylation/*genetics ; Gene Expression Profiling ; Gene Expression Regulation/*genetics ; Genome, Human/genetics ; Humans ; RNA, Messenger/genetics/metabolism ; RNA, Untranslated/genetics/*metabolism ; RNA-Binding Proteins/metabolism ; Substrate Specificity ; Transcription, Genetic/genetics
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  • 47
    Publication Date: 2013-11-22
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Westwick, Peter -- England -- Nature. 2013 Nov 21;503(7476):341. doi: 10.1038/503341a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24256794" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; *Athletes ; Athletic Performance ; Diving ; Forecasting ; Global Warming ; Research ; *Research Personnel ; *Sports ; *Water Movements
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  • 48
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    Publication Date: 2013-03-15
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Harel, Noam Y -- England -- Nature. 2013 Mar 14;495(7440):174. doi: 10.1038/495174b.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23486049" target="_blank"〉PubMed〈/a〉
    Keywords: *Ethics, Research ; Financing, Government/*economics ; Research/*economics
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  • 49
    Publication Date: 2013-05-31
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kukula, Marek -- England -- Nature. 2013 May 30;497(7451):564. doi: 10.1038/497564a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23719450" target="_blank"〉PubMed〈/a〉
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  • 50
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    Publication Date: 2013-05-31
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Smith, Kerri -- England -- Nature. 2013 May 30;497(7451):550-2. doi: 10.1038/497550a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23719444" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Anxiety/drug therapy/metabolism ; Brain Mapping/instrumentation/*methods ; Child ; Child Development Disorders, Pervasive/pathology ; Cocaine-Related Disorders/prevention & control ; Depression/metabolism ; Dopamine/metabolism ; History, 21st Century ; Humans ; Imaging, Three-Dimensional/instrumentation/*methods ; Male ; Mice ; Microscopy ; Neural Pathways/physiology ; Neurosciences/instrumentation/*methods ; Opsins/metabolism/radiation effects ; Optogenetics/history ; Rats
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  • 51
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    Nature Publishing Group (NPG)
    Publication Date: 2013-05-31
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Monastersky, Richard -- England -- Nature. 2013 May 30;497(7451):545-6. doi: 10.1038/497545a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23719440" target="_blank"〉PubMed〈/a〉
    Keywords: Age Factors ; Animals ; Birds/physiology ; Entomology ; Female ; Hemiptera/classification/genetics/growth & development/*physiology ; Larva/genetics/growth & development/physiology ; Life Cycle Stages/*physiology ; Male ; *Periodicity ; Plant Roots/metabolism ; Population Dynamics ; Predatory Behavior/physiology ; Research Personnel ; Sexual Behavior, Animal/physiology ; Survival Rate ; Time Factors ; United States ; Vocalization, Animal/physiology
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  • 52
    Publication Date: 2013-03-01
    Description: The rapid cell turnover of the intestinal epithelium is achieved from small numbers of stem cells located in the base of glandular crypts. These stem cells have been variously described as rapidly cycling or quiescent. A functional arrangement of stem cells that reconciles both of these behaviours has so far been difficult to obtain. Alternative explanations for quiescent cells have been that they act as a parallel or reserve population that replace rapidly cycling stem cells periodically or after injury; their exact nature remains unknown. Here we show mouse intestinal quiescent cells to be precursors that are committed to mature into differentiated secretory cells of the Paneth and enteroendocrine lineage. However, crucially we find that after intestinal injury they are capable of extensive proliferation and can give rise to clones comprising the main epithelial cell types. Thus, quiescent cells can be recalled to the stem-cell state. These findings establish quiescent cells as an effective clonogenic reserve and provide a motivation for investigating their role in pathologies such as colorectal cancers and intestinal inflammation.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Buczacki, Simon J A -- Zecchini, Heather Ireland -- Nicholson, Anna M -- Russell, Roslin -- Vermeulen, Louis -- Kemp, Richard -- Winton, Douglas J -- Cancer Research UK/United Kingdom -- England -- Nature. 2013 Mar 7;495(7439):65-9. doi: 10.1038/nature11965. Epub 2013 Feb 27.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Cancer Research UK Cambridge Research Institute, Li Ka Shing Centre, Robinson Way, Cambridge CB2 0RE, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23446353" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Biomarkers/analysis/metabolism ; Cell Differentiation ; Cell Division ; *Cell Lineage ; Cell Separation ; Clone Cells/cytology/metabolism ; Intestinal Neoplasms/pathology ; Intestines/cytology/injuries/pathology ; Mice ; Multipotent Stem Cells/*cytology/metabolism/*secretion ; Paneth Cells/*cytology/*metabolism ; Receptors, G-Protein-Coupled/*metabolism ; Regeneration ; Staining and Labeling ; Stem Cell Niche
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  • 53
    Publication Date: 2013-07-13
    Description: RNA-binding proteins are key regulators of gene expression, yet only a small fraction have been functionally characterized. Here we report a systematic analysis of the RNA motifs recognized by RNA-binding proteins, encompassing 205 distinct genes from 24 diverse eukaryotes. The sequence specificities of RNA-binding proteins display deep evolutionary conservation, and the recognition preferences for a large fraction of metazoan RNA-binding proteins can thus be inferred from their RNA-binding domain sequence. The motifs that we identify in vitro correlate well with in vivo RNA-binding data. Moreover, we can associate them with distinct functional roles in diverse types of post-transcriptional regulation, enabling new insights into the functions of RNA-binding proteins both in normal physiology and in human disease. These data provide an unprecedented overview of RNA-binding proteins and their targets, and constitute an invaluable resource for determining post-transcriptional regulatory mechanisms in eukaryotes.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3929597/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3929597/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ray, Debashish -- Kazan, Hilal -- Cook, Kate B -- Weirauch, Matthew T -- Najafabadi, Hamed S -- Li, Xiao -- Gueroussov, Serge -- Albu, Mihai -- Zheng, Hong -- Yang, Ally -- Na, Hong -- Irimia, Manuel -- Matzat, Leah H -- Dale, Ryan K -- Smith, Sarah A -- Yarosh, Christopher A -- Kelly, Seth M -- Nabet, Behnam -- Mecenas, Desirea -- Li, Weimin -- Laishram, Rakesh S -- Qiao, Mei -- Lipshitz, Howard D -- Piano, Fabio -- Corbett, Anita H -- Carstens, Russ P -- Frey, Brendan J -- Anderson, Richard A -- Lynch, Kristen W -- Penalva, Luiz O F -- Lei, Elissa P -- Fraser, Andrew G -- Blencowe, Benjamin J -- Morris, Quaid D -- Hughes, Timothy R -- 1R01HG00570/HG/NHGRI NIH HHS/ -- DK015602-05/DK/NIDDK NIH HHS/ -- MOP-125894/Canadian Institutes of Health Research/Canada -- MOP-14409/Canadian Institutes of Health Research/Canada -- MOP-49451/Canadian Institutes of Health Research/Canada -- MOP-67011/Canadian Institutes of Health Research/Canada -- MOP-93671/Canadian Institutes of Health Research/Canada -- P30 CA014520/CA/NCI NIH HHS/ -- R01 CA104708/CA/NCI NIH HHS/ -- R01 GM051968/GM/NIGMS NIH HHS/ -- R01 GM084034/GM/NIGMS NIH HHS/ -- R01 HG005700/HG/NHGRI NIH HHS/ -- R01GM084034/GM/NIGMS NIH HHS/ -- T32 GM008061/GM/NIGMS NIH HHS/ -- Z01 DK015602-01/Intramural NIH HHS/ -- England -- Nature. 2013 Jul 11;499(7457):172-7. doi: 10.1038/nature12311.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Donnelly Centre, University of Toronto, Toronto M5S 3E1, Canada.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23846655" target="_blank"〉PubMed〈/a〉
    Keywords: Autistic Disorder/genetics ; Base Sequence ; Binding Sites/genetics ; Conserved Sequence/genetics ; Eukaryotic Cells/metabolism ; Gene Expression Regulation/*genetics ; Humans ; Molecular Sequence Data ; Nucleotide Motifs/*genetics ; Protein Structure, Tertiary/genetics ; RNA Stability/genetics ; RNA-Binding Proteins/chemistry/genetics/*metabolism
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  • 54
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    Nature Publishing Group (NPG)
    Publication Date: 2013-05-24
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Smith, Kerri -- England -- Nature. 2013 May 23;497(7450):S4-5. doi: 10.1038/497S4a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23698506" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Cats ; Female ; Hippocampus/physiology ; Humans ; Infant ; Memory/*physiology ; Models, Neurological ; Neuronal Plasticity/physiology ; Rats ; Sleep/*physiology ; Sleep, REM/physiology ; Wakefulness/physiology
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  • 55
    Publication Date: 2013-09-27
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Buntrock, Robert E -- England -- Nature. 2013 Sep 26;501(7468):492. doi: 10.1038/501492e.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24067702" target="_blank"〉PubMed〈/a〉
    Keywords: *Career Choice ; Chemistry/manpower ; *Research Personnel
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  • 56
    Publication Date: 2013-02-22
    Description: Pathogens often infect hosts through collective actions: they secrete growth-promoting compounds or virulence factors, or evoke host reactions that fuel the colonization of the host. Such behaviours are vulnerable to the rise of mutants that benefit from the collective action without contributing to it; how these behaviours can be evolutionarily stable is not well understood. We address this question using the intestinal pathogen Salmonella enterica serovar Typhimurium (hereafter termed S. typhimurium), which manipulates its host to induce inflammation, and thereby outcompetes the commensal microbiota. Notably, the virulence factors needed for host manipulation are expressed in a bistable fashion, leading to a slow-growing subpopulation that expresses virulence genes, and a fast-growing subpopulation that is phenotypically avirulent. Here we show that the expression of the genetically identical but phenotypically avirulent subpopulation is essential for the evolutionary stability of virulence in this pathogen. Using a combination of mathematical modelling, experimental evolution and competition experiments we found that within-host evolution leads to the emergence of mutants that are genetically avirulent and fast-growing. These mutants are defectors that exploit inflammation without contributing to it. In infection experiments initiated with wild-type S. typhimurium, defectors increase only slowly in frequency. In a genetically modified S. typhimurium strain in which the phenotypically avirulent subpopulation is reduced in size, defectors rise more rapidly, inflammation ceases prematurely, and S. typhimurium is quickly cleared from the gut. Our results establish that host manipulation by S. typhimurium is a cooperative trait that is vulnerable to the rise of avirulent defectors; the expression of a phenotypically avirulent subpopulation that grows as fast as defectors slows down this process, and thereby promotes the evolutionary stability of virulence. This points to a key role of bistable virulence gene expression in stabilizing cooperative virulence and may lead the way to new approaches for controlling pathogens.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Diard, Mederic -- Garcia, Victor -- Maier, Lisa -- Remus-Emsermann, Mitja N P -- Regoes, Roland R -- Ackermann, Martin -- Hardt, Wolf-Dietrich -- England -- Nature. 2013 Feb 21;494(7437):353-6. doi: 10.1038/nature11913.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Institute of Microbiology, ETH Zurich, Wolfgang-Pauli-Str. 10, 8093 Zurich, Switzerland.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23426324" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; *Biological Evolution ; Host-Pathogen Interactions ; Inflammation/microbiology/pathology ; Intestines/microbiology ; Mice ; Mice, Inbred C57BL ; Mutation ; *Phenotype ; Salmonella Infections/microbiology/prevention & control/transmission ; Salmonella typhimurium/genetics/growth & development/*pathogenicity ; Virulence/genetics/physiology ; Virulence Factors/genetics/metabolism
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  • 57
    Publication Date: 2013-09-06
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉White, Robert -- Ellis, George -- Alexander, Denis -- England -- Nature. 2013 Sep 5;501(7465):33. doi: 10.1038/501033c.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24005403" target="_blank"〉PubMed〈/a〉
    Keywords: History, 17th Century ; History, 18th Century ; History, 19th Century ; History, 20th Century ; History, 21st Century ; *Religion and Science ; *Research Personnel/history
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  • 58
    Publication Date: 2013-05-03
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Monastersky, Richard -- England -- Nature. 2013 May 2;497(7447):13-4. doi: 10.1038/497013a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23636369" target="_blank"〉PubMed〈/a〉
    Keywords: Atmosphere/*chemistry ; Carbon Dioxide/*analysis ; Carbon Sequestration ; *Geographic Mapping ; Hawaii ; Human Activities
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  • 59
    Publication Date: 2013-06-28
    Description: The activation-induced cytidine deaminase (AID; also known as AICDA) enzyme is required for somatic hypermutation and class switch recombination at the immunoglobulin locus. In germinal-centre B cells, AID is highly expressed, and has an inherent mutator activity that helps generate antibody diversity. However, AID may also regulate gene expression epigenetically by directly deaminating 5-methylcytosine in concert with base-excision repair to exchange cytosine. This pathway promotes gene demethylation, thereby removing epigenetic memory. For example, AID promotes active demethylation of the genome in primordial germ cells. However, different studies have suggested either a requirement or a lack of function for AID in promoting pluripotency in somatic nuclei after fusion with embryonic stem cells. Here we tested directly whether AID regulates epigenetic memory by comparing the relative ability of cells lacking AID to reprogram from a differentiated murine cell type to an induced pluripotent stem cell. We show that Aid-null cells are transiently hyper-responsive to the reprogramming process. Although they initiate expression of pluripotency genes, they fail to stabilize in the pluripotent state. The genome of Aid-null cells remains hypermethylated in reprogramming cells, and hypermethylated genes associated with pluripotency fail to be stably upregulated, including many MYC target genes. Recent studies identified a late step of reprogramming associated with methylation status, and implicated a secondary set of pluripotency network components. AID regulates this late step, removing epigenetic memory to stabilize the pluripotent state.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3762466/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3762466/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kumar, Ritu -- DiMenna, Lauren -- Schrode, Nadine -- Liu, Ting-Chun -- Franck, Philipp -- Munoz-Descalzo, Silvia -- Hadjantonakis, Anna-Katerina -- Zarrin, Ali A -- Chaudhuri, Jayanta -- Elemento, Olivier -- Evans, Todd -- AI072194/AI/NIAID NIH HHS/ -- HL056182/HL/NHLBI NIH HHS/ -- P30 CA008748/CA/NCI NIH HHS/ -- R01 HD052115/HD/NICHD NIH HHS/ -- R37 HL056182/HL/NHLBI NIH HHS/ -- T32 AI007621/AI/NIAID NIH HHS/ -- England -- Nature. 2013 Aug 1;500(7460):89-92. doi: 10.1038/nature12299. Epub 2013 Jun 26.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Surgery, Weill Cornell Medical College, New York, New York 10065, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23803762" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Cell Dedifferentiation/genetics ; Cellular Reprogramming/genetics ; Cytidine Deaminase/genetics/*metabolism ; Epigenesis, Genetic/*genetics ; Female ; Fibroblasts/cytology/metabolism ; Gene Expression Regulation ; HEK293 Cells ; Humans ; Male ; Mice ; Pluripotent Stem Cells/*cytology/enzymology/*metabolism ; Transcription Factors/metabolism
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  • 60
    Publication Date: 2013-07-31
    Description: Anaerobic oxidation of methane (AOM) is critical for controlling the flux of methane from anoxic environments. AOM coupled to iron, manganese and sulphate reduction have been demonstrated in consortia containing anaerobic methanotrophic (ANME) archaea. More recently it has been shown that the bacterium Candidatus 'Methylomirabilis oxyfera' can couple AOM to nitrite reduction through an intra-aerobic methane oxidation pathway. Bioreactors capable of AOM coupled to denitrification have resulted in the enrichment of 'M. oxyfera' and a novel ANME lineage, ANME-2d. However, as 'M. oxyfera' can independently couple AOM to denitrification, the role of ANME-2d in the process is unresolved. Here, a bioreactor fed with nitrate, ammonium and methane was dominated by a single ANME-2d population performing nitrate-driven AOM. Metagenomic, single-cell genomic and metatranscriptomic analyses combined with bioreactor performance and (13)C- and (15)N-labelling experiments show that ANME-2d is capable of independent AOM through reverse methanogenesis using nitrate as the terminal electron acceptor. Comparative analyses reveal that the genes for nitrate reduction were transferred laterally from a bacterial donor, suggesting selection for this novel process within ANME-2d. Nitrite produced by ANME-2d is reduced to dinitrogen gas through a syntrophic relationship with an anaerobic ammonium-oxidizing bacterium, effectively outcompeting 'M. oxyfera' in the system. We propose the name Candidatus 'Methanoperedens nitroreducens' for the ANME-2d population and the family Candidatus 'Methanoperedenaceae' for the ANME-2d lineage. We predict that 'M. nitroreducens' and other members of the 'Methanoperedenaceae' have an important role in linking the global carbon and nitrogen cycles in anoxic environments.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Haroon, Mohamed F -- Hu, Shihu -- Shi, Ying -- Imelfort, Michael -- Keller, Jurg -- Hugenholtz, Philip -- Yuan, Zhiguo -- Tyson, Gene W -- England -- Nature. 2013 Aug 29;500(7464):567-70. doi: 10.1038/nature12375. Epub 2013 Jul 28.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Australian Centre for Ecogenomics, School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, Queensland 4072, Australia.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23892779" target="_blank"〉PubMed〈/a〉
    Keywords: Anaerobiosis ; Archaea/*classification/*metabolism ; Bacteria/classification/metabolism ; Bioreactors ; Metagenome ; Methane/*metabolism ; Nitrates/*metabolism ; Nitrites/metabolism ; Nitrogen Cycle ; Oxidation-Reduction ; Quaternary Ammonium Compounds/metabolism ; Single-Cell Analysis ; Transcriptome
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  • 61
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    Nature Publishing Group (NPG)
    Publication Date: 2013-05-10
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Harris, Henry -- England -- Nature. 2013 May 9;497(7448):188. doi: 10.1038/497188d.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23657339" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Genome/*genetics ; Humans ; Molecular Biology/*manpower/*trends ; RNA, Long Noncoding/*genetics ; *Research Personnel
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  • 62
    Publication Date: 2013-10-18
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kunin, William E -- England -- Nature. 2013 Oct 17;502(7471):303. doi: 10.1038/502303a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24132279" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Humans ; *Policy Making ; Research/*standards ; Research Design/*standards
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  • 63
    Publication Date: 2013-01-22
    Description: The intestinal microbiota has a critical role in immune system and metabolic homeostasis, but it must be tolerated by the host to avoid inflammatory responses that can damage the epithelial barrier separating the host from the luminal contents. Breakdown of this regulation and the resulting inappropriate immune response to commensals are thought to lead to the development of inflammatory bowel diseases such as Crohn's disease and ulcerative colitis. We proposed that the intestinal immune system is instructed by the microbiota to limit responses to luminal antigens. Here we demonstrate in mice that, at steady state, the microbiota inhibits the transport of both commensal and pathogenic bacteria from the lumen to a key immune inductive site, the mesenteric lymph nodes (MLNs). However, in the absence of Myd88 or under conditions of antibiotic-induced dysbiosis, non-invasive bacteria were trafficked to the MLNs in a CCR7-dependent manner, and induced both T-cell responses and IgA production. Trafficking was carried out by CX(3)CR1(hi) mononuclear phagocytes, an intestinal-cell population previously reported to be non-migratory. These findings define a central role for commensals in regulating the migration to the MLNs of CX(3)CR1(hi) mononuclear phagocytes endowed with the ability to capture luminal bacteria, thereby compartmentalizing the intestinal immune response to avoid inflammation.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3711636/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3711636/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Diehl, Gretchen E -- Longman, Randy S -- Zhang, Jing-Xin -- Breart, Beatrice -- Galan, Carolina -- Cuesta, Adolfo -- Schwab, Susan R -- Littman, Dan R -- 5P30CA016087-32/CA/NCI NIH HHS/ -- R01 AI085166/AI/NIAID NIH HHS/ -- R01AI085166/AI/NIAID NIH HHS/ -- T32 CA009161/CA/NCI NIH HHS/ -- T32 DK083256/DK/NIDDK NIH HHS/ -- T32 DK083256-02/DK/NIDDK NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2013 Feb 7;494(7435):116-20. doi: 10.1038/nature11809. Epub 2013 Jan 13.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Molecular Pathogenesis Program, The Kimmel Center for Biology and Medicine of the Skirball Institute, New York University School of Medicine, New York, New York 10016, USA. Gretchen.Diehl@med.nyu.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23334413" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Anti-Bacterial Agents/pharmacology ; Antigens, Bacterial/immunology ; Cell Movement ; Dendritic Cells/cytology/immunology ; Immunity, Mucosal/drug effects/*immunology ; Immunoglobulin A/immunology ; Inflammation/immunology ; Intestinal Mucosa/cytology/immunology/microbiology ; Lymph Nodes/*immunology/*microbiology ; Mesentery/*immunology ; Metagenome/immunology/*physiology ; Mice ; Mice, Inbred C57BL ; Myeloid Differentiation Factor 88/deficiency/metabolism ; Phagocytes/cytology/immunology/*metabolism/microbiology ; Phagocytosis ; Receptors, CCR7/deficiency/genetics/metabolism ; Receptors, Chemokine/*metabolism ; Salmonella/cytology/drug effects/immunology ; T-Lymphocytes/immunology
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  • 64
    Publication Date: 2013-10-11
    Description: Cell cycle quiescence is a critical feature contributing to haematopoietic stem cell (HSC) maintenance. Although various candidate stromal cells have been identified as potential HSC niches, the spatial localization of quiescent HSCs in the bone marrow remains unclear. Here, using a novel approach that combines whole-mount confocal immunofluorescence imaging techniques and computational modelling to analyse significant three-dimensional associations in the mouse bone marrow among vascular structures, stromal cells and HSCs, we show that quiescent HSCs associate specifically with small arterioles that are preferentially found in endosteal bone marrow. These arterioles are ensheathed exclusively by rare NG2 (also known as CSPG4)(+) pericytes, distinct from sinusoid-associated leptin receptor (LEPR)(+) cells. Pharmacological or genetic activation of the HSC cell cycle alters the distribution of HSCs from NG2(+) periarteriolar niches to LEPR(+) perisinusoidal niches. Conditional depletion of NG2(+) cells induces HSC cycling and reduces functional long-term repopulating HSCs in the bone marrow. These results thus indicate that arteriolar niches are indispensable for maintaining HSC quiescence.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3821873/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3821873/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kunisaki, Yuya -- Bruns, Ingmar -- Scheiermann, Christoph -- Ahmed, Jalal -- Pinho, Sandra -- Zhang, Dachuan -- Mizoguchi, Toshihide -- Wei, Qiaozhi -- Lucas, Daniel -- Ito, Keisuke -- Mar, Jessica C -- Bergman, Aviv -- Frenette, Paul S -- HL069438/HL/NHLBI NIH HHS/ -- HL097700/HL/NHLBI NIH HHS/ -- R00 CA139009/CA/NCI NIH HHS/ -- R01 DK056638/DK/NIDDK NIH HHS/ -- R01 DK098263/DK/NIDDK NIH HHS/ -- R01 DK100689/DK/NIDDK NIH HHS/ -- R01 HL069438/HL/NHLBI NIH HHS/ -- R01 HL097700/HL/NHLBI NIH HHS/ -- R01 HL116340/HL/NHLBI NIH HHS/ -- T32 063754/PHS HHS/ -- England -- Nature. 2013 Oct 31;502(7473):637-43. doi: 10.1038/nature12612. Epub 2013 Oct 9.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Ruth L. and David S. Gottesman Institute for Stem Cell and Regenerative Medicine Research, Albert Einstein College of Medicine, Bronx, New York 10461, USA [2] Department of Cell Biology, Albert Einstein College of Medicine, Bronx, New York 10461, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24107994" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Arterioles/*cytology ; Bone Marrow/blood supply ; Cell Division ; Cell Separation ; Female ; Flow Cytometry ; Hematopoietic Stem Cells/*cytology/metabolism ; Male ; Mesenchymal Stromal Cells/cytology ; Mice ; Mice, Inbred C57BL ; Nestin/metabolism ; *Stem Cell Niche
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  • 65
    Publication Date: 2013-12-18
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Smith, Steven M -- England -- Nature. 2013 Dec 19;504(7480):384-5. doi: 10.1038/nature12843. Epub 2013 Dec 11.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Australian Research Council Centre of Excellence in Plant Energy Biology, and the School of Chemistry and Biochemistry, University of Western Australia, Perth, Western Australia 6009, Australia.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24336204" target="_blank"〉PubMed〈/a〉
    Keywords: Lactones/*antagonists & inhibitors/*metabolism ; Oryza/*metabolism ; Plant Growth Regulators/*metabolism ; Plant Proteins/*metabolism ; *Proteolysis ; SKP Cullin F-Box Protein Ligases/*metabolism ; *Signal Transduction
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  • 66
    Publication Date: 2013-06-21
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Whiten, Andrew -- England -- Nature. 2013 Jun 20;498(7454):303-5. doi: 10.1038/498303a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23783622" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Archaeology ; Cebus/*physiology ; Humans ; Nuts ; *Tool Use Behavior
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  • 67
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    Nature Publishing Group (NPG)
    Publication Date: 2013-11-05
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Moody, Alan -- England -- Nature. 2013 Oct 31;502(7473):S95.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24187705" target="_blank"〉PubMed〈/a〉
    Keywords: Archives ; Biomedical Research/*methods/*trends ; Confidentiality/ethics ; Humans ; Image Interpretation, Computer-Assisted/*utilization ; *Information Dissemination/ethics ; Information Storage and Retrieval/trends
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  • 68
    Publication Date: 2013-03-29
    Description: Chromosomal replication machines contain coupled DNA polymerases that simultaneously replicate the leading and lagging strands. However, coupled replication presents a largely unrecognized topological problem. Because DNA polymerase must travel a helical path during synthesis, the physical connection between leading- and lagging-strand polymerases causes the daughter strands to entwine, or produces extensive build-up of negative supercoils in the newly synthesized DNA. How DNA polymerases maintain their connection during coupled replication despite these topological challenges is unknown. Here we examine the dynamics of the Escherichia coli replisome, using ensemble and single-molecule methods, and show that the replisome may solve the topological problem independent of topoisomerases. We find that the lagging-strand polymerase frequently releases from an Okazaki fragment before completion, leaving single-strand gaps behind. Dissociation of the polymerase does not result in loss from the replisome because of its contact with the leading-strand polymerase. This behaviour, referred to as 'signal release', had been thought to require a protein, possibly primase, to pry polymerase from incompletely extended DNA fragments. However, we observe that signal release is independent of primase and does not seem to require a protein trigger at all. Instead, the lagging-strand polymerase is simply less processive in the context of a replisome. Interestingly, when the lagging-strand polymerase is supplied with primed DNA in trans, uncoupling it from the fork, high processivity is restored. Hence, we propose that coupled polymerases introduce topological changes, possibly by accumulation of superhelical tension in the newly synthesized DNA, that cause lower processivity and transient lagging-strand polymerase dissociation from DNA.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3618558/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3618558/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kurth, Isabel -- Georgescu, Roxana E -- O'Donnell, Mike E -- GM38839/GM/NIGMS NIH HHS/ -- R01 GM038839/GM/NIGMS NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2013 Apr 4;496(7443):119-22. doi: 10.1038/nature11988. Epub 2013 Mar 27.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉The Rockefeller University, Howard Hughes Medical Institute, 1230 York Avenue, New York, New York 10065, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23535600" target="_blank"〉PubMed〈/a〉
    Keywords: DNA/chemistry/genetics/metabolism ; DNA Primase/metabolism ; *DNA Replication ; DNA, Bacterial/biosynthesis/chemistry/genetics/*metabolism ; DNA, Superhelical/biosynthesis/chemistry/genetics/metabolism ; DNA-Binding Proteins/chemistry/metabolism ; DNA-Directed DNA Polymerase/chemistry/*metabolism ; Escherichia coli/*enzymology/*genetics ; Microscopy, Fluorescence ; Multienzyme Complexes/chemistry/*metabolism ; *Nucleic Acid Conformation ; Protein Binding
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  • 69
    Publication Date: 2013-05-17
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Read, Peter -- England -- Nature. 2013 May 16;497(7449):323-4. doi: 10.1038/497323a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Physics, Clarendon Laboratory, University of Oxford, Oxford OX1 3PU, UK. p.read1@physics.ox.ac.uk〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23676750" target="_blank"〉PubMed〈/a〉
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  • 70
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    Nature Publishing Group (NPG)
    Publication Date: 2013-02-22
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2013 Feb 21;494(7437):281-2. doi: 10.1038/494281b.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23426285" target="_blank"〉PubMed〈/a〉
    Keywords: Democratic People's Republic of Korea ; Environmental Monitoring/*methods ; *International Cooperation ; *Meteoroids ; Nuclear Warfare/prevention & control ; *Nuclear Weapons/legislation & jurisprudence ; Russia
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  • 71
    Publication Date: 2013-06-07
    Description: G-protein-gated inward rectifier K(+) (GIRK) channels allow neurotransmitters, through G-protein-coupled receptor stimulation, to control cellular electrical excitability. In cardiac and neuronal cells this control regulates heart rate and neural circuit activity, respectively. Here we present the 3.5 A resolution crystal structure of the mammalian GIRK2 channel in complex with betagamma G-protein subunits, the central signalling complex that links G-protein-coupled receptor stimulation to K(+) channel activity. Short-range atomic and long-range electrostatic interactions stabilize four betagamma G-protein subunits at the interfaces between four K(+) channel subunits, inducing a pre-open state of the channel. The pre-open state exhibits a conformation that is intermediate between the closed conformation and the open conformation of the constitutively active mutant. The resultant structural picture is compatible with 'membrane delimited' activation of GIRK channels by G proteins and the characteristic burst kinetics of channel gating. The structures also permit a conceptual understanding of how the signalling lipid phosphatidylinositol-4,5-bisphosphate (PIP2) and intracellular Na(+) ions participate in multi-ligand regulation of GIRK channels.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4654628/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4654628/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Whorton, Matthew R -- MacKinnon, Roderick -- 1S10RR022321-01/RR/NCRR NIH HHS/ -- 1S10RR027037-01/RR/NCRR NIH HHS/ -- S10 RR027037/RR/NCRR NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2013 Jun 13;498(7453):190-7. doi: 10.1038/nature12241. Epub 2013 Jun 5.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Laboratory of Molecular Neurobiology and Biophysics, The Rockefeller University, 1230 York Avenue, New York, New York 10065, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23739333" target="_blank"〉PubMed〈/a〉
    Keywords: Binding Sites ; Crystallography, X-Ray ; G Protein-Coupled Inwardly-Rectifying Potassium ; Channels/*chemistry/genetics/metabolism ; Heterotrimeric GTP-Binding Proteins/*chemistry/genetics/metabolism ; Humans ; Ion Channel Gating ; Models, Biological ; Models, Molecular ; Phosphatidylinositol 4,5-Diphosphate/metabolism ; Protein Conformation ; Protein Interaction Domains and Motifs ; Protein Subunits/chemistry/metabolism ; Sodium/metabolism ; Static Electricity
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  • 72
    Publication Date: 2013-03-29
    Description: Protein N-myristoylation is a 14-carbon fatty-acid modification that is conserved across eukaryotic species and occurs on nearly 1% of the cellular proteome. The ability of the myristoyl group to facilitate dynamic protein-protein and protein-membrane interactions (known as the myristoyl switch) makes it an essential feature of many signal transduction systems. Thus pathogenic strategies that facilitate protein demyristoylation would markedly alter the signalling landscape of infected host cells. Here we describe an irreversible mechanism of protein demyristoylation catalysed by invasion plasmid antigen J (IpaJ), a previously uncharacterized Shigella flexneri type III effector protein with cysteine protease activity. A yeast genetic screen for IpaJ substrates identified ADP-ribosylation factor (ARF)1p and ARF2p, small molecular mass GTPases that regulate cargo transport through the Golgi apparatus. Mass spectrometry showed that IpaJ cleaved the peptide bond between N-myristoylated glycine-2 and asparagine-3 of human ARF1, thereby providing a new mechanism for host secretory inhibition by a bacterial pathogen. We further demonstrate that IpaJ cleaves an array of N-myristoylated proteins involved in cellular growth, signal transduction, autophagasome maturation and organelle function. Taken together, these findings show a previously unrecognized pathogenic mechanism for the site-specific elimination of N-myristoyl protein modification.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3722872/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3722872/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Burnaevskiy, Nikolay -- Fox, Thomas G -- Plymire, Daniel A -- Ertelt, James M -- Weigele, Bethany A -- Selyunin, Andrey S -- Way, Sing Sing -- Patrie, Steven M -- Alto, Neal M -- 5T32AI007520/AI/NIAID NIH HHS/ -- R01 AI083359/AI/NIAID NIH HHS/ -- R01 AI087830/AI/NIAID NIH HHS/ -- R01 AI100934/AI/NIAID NIH HHS/ -- R01 GM100486/GM/NIGMS NIH HHS/ -- R01AI083359/AI/NIAID NIH HHS/ -- R01GM100486/GM/NIGMS NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2013 Apr 4;496(7443):106-9. doi: 10.1038/nature12004. Epub 2013 Mar 27.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Microbiology, University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, Texas 75390-8816, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23535599" target="_blank"〉PubMed〈/a〉
    Keywords: ADP-Ribosylation Factor 1/chemistry/metabolism ; ADP-Ribosylation Factors/metabolism ; Amino Acid Sequence ; Animals ; Antigens, Bacterial/*metabolism ; Asparagine/metabolism ; Autophagy ; Biocatalysis ; Cysteine Proteases/metabolism ; Dysentery, Bacillary ; Female ; Glycine/metabolism ; Golgi Apparatus/metabolism/pathology ; HEK293 Cells ; HeLa Cells ; Humans ; Listeria monocytogenes/physiology ; Mice ; Mice, Inbred C57BL ; Molecular Sequence Data ; Myristic Acid/*metabolism ; Phagosomes/metabolism ; *Protein Processing, Post-Translational ; *Proteolysis ; Saccharomyces cerevisiae ; Saccharomyces cerevisiae Proteins/metabolism ; Sequence Alignment ; Shigella flexneri/enzymology/*metabolism ; Signal Transduction ; Substrate Specificity ; Virulence ; Virulence Factors/*metabolism
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  • 73
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    Nature Publishing Group (NPG)
    Publication Date: 2013-02-22
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2013 Feb 21;494(7437):282. doi: 10.1038/494282a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23426286" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Conservation of Natural Resources/*methods ; Ecology/methods ; *Ecosystem ; Fisheries/economics/methods/standards/*statistics & numerical data ; Fishes/growth & development/*physiology ; Marine Biology/methods ; Oceans and Seas ; Population Dynamics ; Uncertainty
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  • 74
    Publication Date: 2013-11-05
    Description: Hepatitis C virus (HCV) and classical swine fever virus (CSFV) messenger RNAs contain related (HCV-like) internal ribosome entry sites (IRESs) that promote 5'-end independent initiation of translation, requiring only a subset of the eukaryotic initiation factors (eIFs) needed for canonical initiation on cellular mRNAs. Initiation on HCV-like IRESs relies on their specific interaction with the 40S subunit, which places the initiation codon into the P site, where it directly base-pairs with eIF2-bound initiator methionyl transfer RNA to form a 48S initiation complex. However, all HCV-like IRESs also specifically interact with eIF3 (refs 2, 5-7, 9-12), but the role of this interaction in IRES-mediated initiation has remained unknown. During canonical initiation, eIF3 binds to the 40S subunit as a component of the 43S pre-initiation complex, and comparison of the ribosomal positions of eIF3 and the HCV IRES revealed that they overlap, so that their rearrangement would be required for formation of ribosomal complexes containing both components. Here we present a cryo-electron microscopy reconstruction of a 40S ribosomal complex containing eIF3 and the CSFV IRES. Remarkably, although the position and interactions of the CSFV IRES with the 40S subunit in this complex are similar to those of the HCV IRES in the 40S-IRES binary complex, eIF3 is completely displaced from its ribosomal position in the 43S complex, and instead interacts through its ribosome-binding surface exclusively with the apical region of domain III of the IRES. Our results suggest a role for the specific interaction of HCV-like IRESs with eIF3 in preventing ribosomal association of eIF3, which could serve two purposes: relieving the competition between the IRES and eIF3 for a common binding site on the 40S subunit, and reducing formation of 43S complexes, thereby favouring translation of viral mRNAs.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4106463/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4106463/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hashem, Yaser -- des Georges, Amedee -- Dhote, Vidya -- Langlois, Robert -- Liao, Hstau Y -- Grassucci, Robert A -- Pestova, Tatyana V -- Hellen, Christopher U T -- Frank, Joachim -- R01 AI51340/AI/NIAID NIH HHS/ -- R01 GM029169/GM/NIGMS NIH HHS/ -- R01 GM59660/GM/NIGMS NIH HHS/ -- R01GM29169/GM/NIGMS NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2013 Nov 28;503(7477):539-43. doi: 10.1038/nature12658. Epub 2013 Nov 3.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Howard Hughes Medical Institute (HHMI), Department of Biochemistry and Molecular Biophysics, Columbia University, New York City, New York 10032, USA [2] Department of Biochemistry and Molecular Biophysics, Columbia University, New York City, New York 10032, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24185006" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Binding, Competitive ; Classical swine fever virus/*genetics ; Cryoelectron Microscopy ; Eukaryotic Initiation Factor-3/chemistry/*metabolism/ultrastructure ; Humans ; Models, Molecular ; Protein Biosynthesis ; RNA, Viral/*genetics/*metabolism ; Rabbits ; Regulatory Sequences, Ribonucleic Acid/*genetics ; Ribosome Subunits, Small, Eukaryotic/chemistry/*metabolism/ultrastructure ; Ribosomes/chemistry/*metabolism/ultrastructure
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  • 75
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    Nature Publishing Group (NPG)
    Publication Date: 2013-10-25
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Moore, David D -- England -- Nature. 2013 Oct 24;502(7472):454-5. doi: 10.1038/502454a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, Texas 77030, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24153294" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; *Circadian Rhythm ; Fatty Acids/*metabolism ; Lipids/*blood ; *Lipogenesis ; Liver/*metabolism ; Male
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  • 76
    Publication Date: 2013-02-08
    Description: Several mutations are required for cancer development, and genome sequencing has revealed that many cancers, including breast cancer, have somatic mutation spectra dominated by C-to-T transitions. Most of these mutations occur at hydrolytically disfavoured non-methylated cytosines throughout the genome, and are sometimes clustered. Here we show that the DNA cytosine deaminase APOBEC3B is a probable source of these mutations. APOBEC3B messenger RNA is upregulated in most primary breast tumours and breast cancer cell lines. Tumours that express high levels of APOBEC3B have twice as many mutations as those that express low levels and are more likely to have mutations in TP53. Endogenous APOBEC3B protein is predominantly nuclear and the only detectable source of DNA C-to-U editing activity in breast cancer cell-line extracts. Knockdown experiments show that endogenous APOBEC3B correlates with increased levels of genomic uracil, increased mutation frequencies, and C-to-T transitions. Furthermore, induced APOBEC3B overexpression causes cell cycle deviations, cell death, DNA fragmentation, gamma-H2AX accumulation and C-to-T mutations. Our data suggest a model in which APOBEC3B-catalysed deamination provides a chronic source of DNA damage in breast cancers that could select TP53 inactivation and explain how some tumours evolve rapidly and manifest heterogeneity.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3907282/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3907282/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Burns, Michael B -- Lackey, Lela -- Carpenter, Michael A -- Rathore, Anurag -- Land, Allison M -- Leonard, Brandon -- Refsland, Eric W -- Kotandeniya, Delshanee -- Tretyakova, Natalia -- Nikas, Jason B -- Yee, Douglas -- Temiz, Nuri A -- Donohue, Duncan E -- McDougle, Rebecca M -- Brown, William L -- Law, Emily K -- Harris, Reuben S -- 1UL1RR033183/RR/NCRR NIH HHS/ -- F31 DA033186/DA/NIDA NIH HHS/ -- F32 GM095219/GM/NIGMS NIH HHS/ -- KL2 RR033182/RR/NCRR NIH HHS/ -- P01 GM091743/GM/NIGMS NIH HHS/ -- P30 CA77598/CA/NCI NIH HHS/ -- P50 CA101955/CA/NCI NIH HHS/ -- R01 AI064046/AI/NIAID NIH HHS/ -- T32 AI083196/AI/NIAID NIH HHS/ -- T32 CA009138/CA/NCI NIH HHS/ -- UL1 TR000114/TR/NCATS NIH HHS/ -- Canadian Institutes of Health Research/Canada -- England -- Nature. 2013 Feb 21;494(7437):366-70. doi: 10.1038/nature11881. Epub 2013 Feb 6.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Biochemistry, Molecular Biology and Biophysics Department, University of Minnesota, Minneapolis, Minnesota 55455, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23389445" target="_blank"〉PubMed〈/a〉
    Keywords: Base Sequence ; Biocatalysis ; Breast Neoplasms/*enzymology/*genetics/pathology ; Cell Death ; Cell Line, Tumor ; Cytidine Deaminase/genetics/*metabolism ; DNA Damage/genetics ; DNA Fragmentation ; DNA, Neoplasm/genetics/metabolism ; Deamination ; Gene Expression Regulation, Enzymologic ; Gene Expression Regulation, Neoplastic ; Histones/metabolism ; Humans ; *Mutagenesis/genetics ; Phenotype ; *Point Mutation/genetics ; Tumor Suppressor Protein p53/genetics/metabolism ; Up-Regulation ; Uracil/metabolism
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  • 77
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    Nature Publishing Group (NPG)
    Publication Date: 2013-03-08
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Reich, Eugenie Samuel -- England -- Nature. 2013 Mar 7;495(7439):17. doi: 10.1038/495017a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23467144" target="_blank"〉PubMed〈/a〉
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  • 78
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    Nature Publishing Group (NPG)
    Publication Date: 2013-10-25
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Witze, Alexandra -- England -- Nature. 2013 Oct 24;502(7472):422-3. doi: 10.1038/502422a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24153274" target="_blank"〉PubMed〈/a〉
    Keywords: Accidents, Aviation/*prevention & control ; Aircraft/*instrumentation ; Atmosphere/chemistry ; Environmental Monitoring/*instrumentation ; Evaluation Studies as Topic ; France ; Humans ; Iceland ; Norway ; Volcanic Eruptions/*analysis
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  • 79
    Publication Date: 2013-07-05
    Description: Climate targets are designed to inform policies that would limit the magnitude and impacts of climate change caused by anthropogenic emissions of greenhouse gases and other substances. The target that is currently recognized by most world governments places a limit of two degrees Celsius on the global mean warming since preindustrial times. This would require large sustained reductions in carbon dioxide emissions during the twenty-first century and beyond. Such a global temperature target, however, is not sufficient to control many other quantities, such as transient sea level rise, ocean acidification and net primary production on land. Here, using an Earth system model of intermediate complexity (EMIC) in an observation-informed Bayesian approach, we show that allowable carbon emissions are substantially reduced when multiple climate targets are set. We take into account uncertainties in physical and carbon cycle model parameters, radiative efficiencies, climate sensitivity and carbon cycle feedbacks along with a large set of observational constraints. Within this framework, we explore a broad range of economically feasible greenhouse gas scenarios from the integrated assessment community to determine the likelihood of meeting a combination of specific global and regional targets under various assumptions. For any given likelihood of meeting a set of such targets, the allowable cumulative emissions are greatly reduced from those inferred from the temperature target alone. Therefore, temperature targets alone are unable to comprehensively limit the risks from anthropogenic emissions.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Steinacher, Marco -- Joos, Fortunat -- Stocker, Thomas F -- England -- Nature. 2013 Jul 11;499(7457):197-201. doi: 10.1038/nature12269. Epub 2013 Jul 3.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Climate and Environmental Physics, University of Bern, 3012 Bern, Switzerland. steinacher@climate.unibe.ch〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23823728" target="_blank"〉PubMed〈/a〉
    Keywords: Atmosphere/chemistry ; Bayes Theorem ; Carbon Cycle ; Carbon Dioxide/*analysis ; Climate ; Climate Change/*statistics & numerical data ; Feedback ; Forecasting ; Fossil Fuels ; Greenhouse Effect/statistics & numerical data ; *Models, Theoretical ; Temperature ; Time Factors ; Uncertainty
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  • 80
    Publication Date: 2013-03-15
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Butler, Jason M -- Rafii, Shahin -- England -- Nature. 2013 Mar 21;495(7441):317-8. doi: 10.1038/nature12085. Epub 2013 Mar 13.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23485972" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Dinoprostone/*metabolism ; Hematopoietic Stem Cells/*cytology ; Humans ; Stem Cells/*cytology
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  • 81
    Publication Date: 2013-09-13
    Description: Reprogramming of adult cells to generate induced pluripotent stem cells (iPS cells) has opened new therapeutic opportunities; however, little is known about the possibility of in vivo reprogramming within tissues. Here we show that transitory induction of the four factors Oct4, Sox2, Klf4 and c-Myc in mice results in teratomas emerging from multiple organs, implying that full reprogramming can occur in vivo. Analyses of the stomach, intestine, pancreas and kidney reveal groups of dedifferentiated cells that express the pluripotency marker NANOG, indicative of in situ reprogramming. By bone marrow transplantation, we demonstrate that haematopoietic cells can also be reprogrammed in vivo. Notably, reprogrammable mice present circulating iPS cells in the blood and, at the transcriptome level, these in vivo generated iPS cells are closer to embryonic stem cells (ES cells) than standard in vitro generated iPS cells. Moreover, in vivo iPS cells efficiently contribute to the trophectoderm lineage, suggesting that they achieve a more plastic or primitive state than ES cells. Finally, intraperitoneal injection of in vivo iPS cells generates embryo-like structures that express embryonic and extraembryonic markers. We conclude that reprogramming in vivo is feasible and confers totipotency features absent in standard iPS or ES cells. These discoveries could be relevant for future applications of reprogramming in regenerative medicine.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Abad, Maria -- Mosteiro, Lluc -- Pantoja, Cristina -- Canamero, Marta -- Rayon, Teresa -- Ors, Inmaculada -- Grana, Osvaldo -- Megias, Diego -- Dominguez, Orlando -- Martinez, Dolores -- Manzanares, Miguel -- Ortega, Sagrario -- Serrano, Manuel -- England -- Nature. 2013 Oct 17;502(7471):340-5. doi: 10.1038/nature12586. Epub 2013 Sep 11.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Tumour Suppression Group, Spanish National Cancer Research Centre (CNIO), Madrid E-28029, Spain.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24025773" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Blood Cells/cytology/metabolism ; Cell Dedifferentiation ; Cell Separation ; Cells, Cultured ; *Cellular Reprogramming/genetics ; Ectoderm/cytology ; Embryoid Bodies/cytology/metabolism ; Embryonic Stem Cells/cytology/metabolism ; Female ; Fibroblasts/cytology ; Gene Expression Profiling ; Induced Pluripotent Stem Cells/*cytology/metabolism ; Intestines/cytology ; Kidney/cytology ; Kruppel-Like Transcription Factors/genetics/metabolism ; Male ; Mice ; Mice, Inbred C57BL ; Octamer Transcription Factor-3/genetics/metabolism ; Organ Specificity ; Pancreas/cytology ; Proto-Oncogene Proteins c-myc/genetics/metabolism ; SOXB1 Transcription Factors/genetics/metabolism ; Stomach/cytology ; Teratoma/genetics/*metabolism/pathology ; Totipotent Stem Cells/*cytology/metabolism ; Transcriptome/genetics ; Trophoblasts/cytology
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  • 82
    Publication Date: 2013-10-25
    Description: Circadian clocks provide a competitive advantage in an environment that is heavily influenced by the rotation of the Earth, by driving daily rhythms in behaviour, physiology and metabolism in bacteria, fungi, plants and animals. Circadian clocks comprise transcription-translation feedback loops, which are entrained by environmental signals such as light and temperature to adjust the phase of rhythms to match the local environment. The production of sugars by photosynthesis is a key metabolic output of the circadian clock in plants. Here we show that these rhythmic, endogenous sugar signals can entrain circadian rhythms in Arabidopsis thaliana by regulating the gene expression of circadian clock components early in the photoperiod, thus defining a 'metabolic dawn'. By inhibiting photosynthesis, we demonstrate that endogenous oscillations in sugar levels provide metabolic feedback to the circadian oscillator through the morning-expressed gene PSEUDO-RESPONSE REGULATOR 7 (PRR7), and we identify that prr7 mutants are insensitive to the effects of sucrose on the circadian period. Thus, photosynthesis has a marked effect on the entrainment and maintenance of robust circadian rhythms in A. thaliana, demonstrating that metabolism has a crucial role in regulation of the circadian clock.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3827739/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3827739/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Haydon, Michael J -- Mielczarek, Olga -- Robertson, Fiona C -- Hubbard, Katharine E -- Webb, Alex A R -- BB/D017904/1/Biotechnology and Biological Sciences Research Council/United Kingdom -- BB/H006826/1/Biotechnology and Biological Sciences Research Council/United Kingdom -- England -- Nature. 2013 Oct 31;502(7473):689-92. doi: 10.1038/nature12603. Epub 2013 Oct 23.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Department of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, UK [2] Department of Biology, University of York, York YO10 5DD, UK (M.J.H.); Department of Biochemistry, University of Zimbabwe, PO Box MP45, Harare, Zimbabwe (F.C.R.).〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24153186" target="_blank"〉PubMed〈/a〉
    Keywords: Arabidopsis/drug effects/genetics/*physiology/radiation effects ; Arabidopsis Proteins/genetics/metabolism ; Circadian Clocks/genetics/*physiology/radiation effects ; Circadian Rhythm/drug effects/genetics/physiology/radiation effects ; Gene Expression Regulation, Plant/drug effects/radiation effects ; Photoperiod ; Photosynthesis/*physiology/radiation effects ; Repressor Proteins/genetics/metabolism ; Signal Transduction/drug effects/radiation effects ; Sucrose/metabolism/pharmacology ; Transcription, Genetic/drug effects/radiation effects
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  • 83
    Publication Date: 2013-07-19
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Steinhauer, David A -- England -- Nature. 2013 Jul 25;499(7459):412-3. doi: 10.1038/nature12455. Epub 2013 Jul 17.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23863929" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Humans ; Influenza A virus/*metabolism/*physiology ; Influenza in Birds/*virology ; Influenza, Human/*virology ; N-Acetylneuraminic Acid/*metabolism ; Receptors, Virus/*metabolism
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  • 84
    Publication Date: 2013-05-03
    Description: DNA methylation is an epigenetic modification that has critical roles in gene silencing, development and genome integrity. In Arabidopsis, DNA methylation is established by DOMAINS REARRANGED METHYLTRANSFERASE 2 (DRM2) and targeted by 24-nucleotide small interfering RNAs (siRNAs) through a pathway termed RNA-directed DNA methylation (RdDM). This pathway requires two plant-specific RNA polymerases: Pol-IV, which functions to initiate siRNA biogenesis, and Pol-V, which functions to generate scaffold transcripts that recruit downstream RdDM factors. To understand the mechanisms controlling Pol-IV targeting we investigated the function of SAWADEE HOMEODOMAIN HOMOLOG 1 (SHH1), a Pol-IV-interacting protein. Here we show that SHH1 acts upstream in the RdDM pathway to enable siRNA production from a large subset of the most active RdDM targets, and that SHH1 is required for Pol-IV occupancy at these same loci. We also show that the SHH1 SAWADEE domain is a novel chromatin-binding module that adopts a unique tandem Tudor-like fold and functions as a dual lysine reader, probing for both unmethylated K4 and methylated K9 modifications on the histone 3 (H3) tail. Finally, we show that key residues within both lysine-binding pockets of SHH1 are required in vivo to maintain siRNA and DNA methylation levels as well as Pol-IV occupancy at RdDM targets, demonstrating a central role for methylated H3K9 binding in SHH1 function and providing the first insights into the mechanism of Pol-IV targeting. Given the parallels between methylation systems in plants and mammals, a further understanding of this early targeting step may aid our ability to control the expression of endogenous and newly introduced genes, which has broad implications for agriculture and gene therapy.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4119789/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4119789/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Law, Julie A -- Du, Jiamu -- Hale, Christopher J -- Feng, Suhua -- Krajewski, Krzysztof -- Palanca, Ana Marie S -- Strahl, Brian D -- Patel, Dinshaw J -- Jacobsen, Steven E -- GM60398/GM/NIGMS NIH HHS/ -- GM85394/GM/NIGMS NIH HHS/ -- R01 GM060398/GM/NIGMS NIH HHS/ -- R37 GM060398/GM/NIGMS NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2013 Jun 20;498(7454):385-9. doi: 10.1038/nature12178. Epub 2013 May 1.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Molecular, Cell and Developmental Biology, University of California at Los Angeles, Los Angeles, California 90095, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23636332" target="_blank"〉PubMed〈/a〉
    Keywords: Arabidopsis/*enzymology/genetics/*metabolism ; Arabidopsis Proteins/chemistry/genetics/*metabolism ; Binding Sites/genetics ; Chromatin/chemistry/genetics/metabolism ; Crystallography, X-Ray ; DNA Methylation/*genetics ; DNA-Directed RNA Polymerases/genetics/*metabolism ; Epigenesis, Genetic/genetics ; Histones/chemistry/metabolism ; Homeodomain Proteins/chemistry/*metabolism ; Lysine/chemistry/metabolism ; Methyltransferases/genetics/metabolism ; Models, Molecular ; Mutation ; Protein Folding ; Protein Structure, Tertiary ; RNA, Small Interfering/biosynthesis/genetics/metabolism
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  • 85
    Publication Date: 2013-11-29
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Haynes, Katharine -- Bird, Deanne -- McAneney, John -- England -- Nature. 2013 Nov 28;503(7477):469. doi: 10.1038/503469a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Risk Frontiers, Macquarie University, Sydney, Australia.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24284720" target="_blank"〉PubMed〈/a〉
    Keywords: Australia ; Cities ; Desert Climate ; Disasters/*prevention & control ; Fires/*prevention & control ; *Trees/growth & development
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  • 86
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    Nature Publishing Group (NPG)
    Publication Date: 2013-10-05
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Witze, Alexandra -- England -- Nature. 2013 Oct 3;502(7469):14-5. doi: 10.1038/502014a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24091958" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Arizona ; Ecosystem ; Fossils ; Geologic Sediments/*analysis ; *Geology
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  • 87
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    Nature Publishing Group (NPG)
    Publication Date: 2013-10-19
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Dufour, Heloise D -- Carroll, Sean B -- England -- Nature. 2013 Oct 3;502(7469):32-3.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Howard Hughes Medical Institute, University of Wisconsin-Madison, 1525 Linden Drive, Madison, Wisconsin 53706, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24137644" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Biography as Topic ; *Famous Persons ; France ; History, 20th Century ; Humans ; *Mythology ; Rabies Vaccines/history
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  • 88
    Publication Date: 2013-03-01
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Reich, Eugenie Samuel -- England -- Nature. 2013 Feb 28;494(7438):420-2. doi: 10.1038/494420a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23446399" target="_blank"〉PubMed〈/a〉
    Keywords: Consultants/*history ; Emigration and Immigration ; *Federal Government/history ; History, 20th Century ; History, 21st Century ; *Politics ; Public Policy/economics/*history ; Research Personnel/supply & distribution ; Science/economics/history/manpower/*organization & administration ; Technology/economics/manpower/organization & administration/trends ; United States
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  • 89
    Publication Date: 2013-01-22
    Description: Interferon-induced proteins with tetratricopeptide repeats (IFITs) are innate immune effector molecules that are thought to confer antiviral defence through disruption of protein-protein interactions in the host translation-initiation machinery. However, it was recently discovered that IFITs can directly recognize viral RNA bearing a 5'-triphosphate group (PPP-RNA), which is a molecular signature that distinguishes it from host RNA. Here we report crystal structures of human IFIT5, its complex with PPP-RNAs, and an amino-terminal fragment of IFIT1. The structures reveal a new helical domain that houses a positively charged cavity designed to specifically engage only single-stranded PPP-RNA, thus distinguishing it from the canonical cytosolic sensor of double-stranded viral PPP-RNA, retinoic acid-inducible gene I (RIG-I, also known as DDX58). Mutational analysis, proteolysis and gel-shift assays reveal that PPP-RNA is bound in a non-sequence-specific manner and requires a 5'-overhang of approximately three nucleotides. Abrogation of PPP-RNA binding in IFIT1 and IFIT5 was found to cause a defect in the antiviral response by human embryonic kidney cells. These results demonstrate the mechanism by which IFIT proteins selectively recognize viral RNA, and lend insight into their downstream effector function.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Abbas, Yazan M -- Pichlmair, Andreas -- Gorna, Maria W -- Superti-Furga, Giulio -- Nagar, Bhushan -- MOP-82929/Canadian Institutes of Health Research/Canada -- England -- Nature. 2013 Feb 7;494(7435):60-4. doi: 10.1038/nature11783. Epub 2013 Jan 13.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Biochemistry, Groupe de Recherche Axe sur la Structure des Proteines, McGill University, Montreal, Quebec H3G 0B1, Canada.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23334420" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acid Motifs ; Binding Sites ; Carrier Proteins/*chemistry/*metabolism ; Humans ; Immunity, Innate/immunology ; Models, Molecular ; Neoplasm Proteins/*chemistry/*metabolism ; Phosphorylation ; Protein Conformation ; RNA, Viral/*chemistry/genetics/*metabolism ; Reproducibility of Results ; Substrate Specificity
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  • 90
    Publication Date: 2013-06-19
    Description: Major international projects are underway that are aimed at creating a comprehensive catalogue of all the genes responsible for the initiation and progression of cancer. These studies involve the sequencing of matched tumour-normal samples followed by mathematical analysis to identify those genes in which mutations occur more frequently than expected by random chance. Here we describe a fundamental problem with cancer genome studies: as the sample size increases, the list of putatively significant genes produced by current analytical methods burgeons into the hundreds. The list includes many implausible genes (such as those encoding olfactory receptors and the muscle protein titin), suggesting extensive false-positive findings that overshadow true driver events. We show that this problem stems largely from mutational heterogeneity and provide a novel analytical methodology, MutSigCV, for resolving the problem. We apply MutSigCV to exome sequences from 3,083 tumour-normal pairs and discover extraordinary variation in mutation frequency and spectrum within cancer types, which sheds light on mutational processes and disease aetiology, and in mutation frequency across the genome, which is strongly correlated with DNA replication timing and also with transcriptional activity. By incorporating mutational heterogeneity into the analyses, MutSigCV is able to eliminate most of the apparent artefactual findings and enable the identification of genes truly associated with cancer.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3919509/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3919509/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Lawrence, Michael S -- Stojanov, Petar -- Polak, Paz -- Kryukov, Gregory V -- Cibulskis, Kristian -- Sivachenko, Andrey -- Carter, Scott L -- Stewart, Chip -- Mermel, Craig H -- Roberts, Steven A -- Kiezun, Adam -- Hammerman, Peter S -- McKenna, Aaron -- Drier, Yotam -- Zou, Lihua -- Ramos, Alex H -- Pugh, Trevor J -- Stransky, Nicolas -- Helman, Elena -- Kim, Jaegil -- Sougnez, Carrie -- Ambrogio, Lauren -- Nickerson, Elizabeth -- Shefler, Erica -- Cortes, Maria L -- Auclair, Daniel -- Saksena, Gordon -- Voet, Douglas -- Noble, Michael -- DiCara, Daniel -- Lin, Pei -- Lichtenstein, Lee -- Heiman, David I -- Fennell, Timothy -- Imielinski, Marcin -- Hernandez, Bryan -- Hodis, Eran -- Baca, Sylvan -- Dulak, Austin M -- Lohr, Jens -- Landau, Dan-Avi -- Wu, Catherine J -- Melendez-Zajgla, Jorge -- Hidalgo-Miranda, Alfredo -- Koren, Amnon -- McCarroll, Steven A -- Mora, Jaume -- Lee, Ryan S -- Crompton, Brian -- Onofrio, Robert -- Parkin, Melissa -- Winckler, Wendy -- Ardlie, Kristin -- Gabriel, Stacey B -- Roberts, Charles W M -- Biegel, Jaclyn A -- Stegmaier, Kimberly -- Bass, Adam J -- Garraway, Levi A -- Meyerson, Matthew -- Golub, Todd R -- Gordenin, Dmitry A -- Sunyaev, Shamil -- Lander, Eric S -- Getz, Gad -- ES065073/ES/NIEHS NIH HHS/ -- T32 CA009172/CA/NCI NIH HHS/ -- T32 CA009216/CA/NCI NIH HHS/ -- T32 GM007753/GM/NIGMS NIH HHS/ -- U24 CA143845/CA/NCI NIH HHS/ -- U54 HG003067/HG/NHGRI NIH HHS/ -- Howard Hughes Medical Institute/ -- Intramural NIH HHS/ -- England -- Nature. 2013 Jul 11;499(7457):214-8. doi: 10.1038/nature12213. Epub 2013 Jun 16.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉The Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02141, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23770567" target="_blank"〉PubMed〈/a〉
    Keywords: Artifacts ; DNA Replication Timing ; Exome/genetics ; False Positive Reactions ; Gene Expression ; *Genetic Heterogeneity ; Genome, Human/genetics ; Humans ; Lung Neoplasms/genetics ; Mutation/*genetics ; Mutation Rate ; Neoplasms/classification/*genetics/pathology ; Neoplasms, Squamous Cell/genetics ; Oncogenes/*genetics ; Reproducibility of Results ; Sample Size
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    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 91
    Publication Date: 2013-03-01
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Stephan, Douglas W -- England -- Nature. 2013 Mar 7;495(7439):54-5. doi: 10.1038/nature11955. Epub 2013 Feb 27.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23446350" target="_blank"〉PubMed〈/a〉
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 92
    Publication Date: 2013-01-22
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Butterbach-Bahl, Klaus -- Kiese, Ralf -- England -- Nature. 2013 Jan 24;493(7433):483-5. doi: 10.1038/nature11853. Epub 2013 Jan 16.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23334412" target="_blank"〉PubMed〈/a〉
    Keywords: Agriculture/*methods ; Biofuels/*supply & distribution ; Renewable Energy/*statistics & numerical data
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 93
    Publication Date: 2013-05-31
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Buzsaki, Gyorgy -- England -- Nature. 2013 May 30;497(7451):568-9. doi: 10.1038/497568a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23719456" target="_blank"〉PubMed〈/a〉
    Keywords: Cognition/*physiology ; Hippocampus/*cytology/*physiology ; Humans ; *Memory, Episodic ; Space Perception/*physiology ; *Time ; Time Factors
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 94
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    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2013-02-22
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Reich, Eugenie Samuel -- England -- Nature. 2013 Feb 21;494(7437):291-2. doi: 10.1038/494291a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23426301" target="_blank"〉PubMed〈/a〉
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 95
    Publication Date: 2013-03-08
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Moynihan, Donald -- England -- Nature. 2013 Mar 7;495(7439):7. doi: 10.1038/495007a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉La Follette School of Public Affairs, University of Wisconsin-Madison, USA. dmoynihan@lafollette.wisc.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23467129" target="_blank"〉PubMed〈/a〉
    Keywords: Budgets ; Cyclonic Storms ; Disaster Planning/*economics/*organization & administration ; Politics ; Relief Work/economics ; State Government ; United States ; United States Government Agencies/*economics/*organization & administration
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 96
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    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2013-06-28
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Moyer, Melinda Wenner -- England -- Nature. 2013 Jun 27;498(7455):S16. doi: 10.1038/498S16a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23803945" target="_blank"〉PubMed〈/a〉
    Keywords: *Blood Banks ; *Cord Blood Stem Cell Transplantation/adverse effects ; Female ; *Graft vs Leukemia Effect/immunology ; Health Education ; Humans ; Infant, Newborn ; Interleukin-7/immunology/therapeutic use ; Leukemia/immunology/pathology/*therapy ; Leukemia, Myeloid, Acute/immunology/pathology/therapy ; Male ; Pregnancy ; Umbilical Cord/*cytology
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 97
    Publication Date: 2013-02-08
    Description: According to the Milankovitch theory, changes in summer insolation in the high-latitude Northern Hemisphere caused glacial cycles through their impact on ice-sheet mass balance. Statistical analyses of long climate records supported this theory, but they also posed a substantial challenge by showing that changes in Southern Hemisphere climate were in phase with or led those in the north. Although an orbitally forced Northern Hemisphere signal may have been transmitted to the Southern Hemisphere, insolation forcing can also directly influence local Southern Hemisphere climate, potentially intensified by sea-ice feedback, suggesting that the hemispheres may have responded independently to different aspects of orbital forcing. Signal processing of climate records cannot distinguish between these conditions, however, because the proposed insolation forcings share essentially identical variability. Here we use transient simulations with a coupled atmosphere-ocean general circulation model to identify the impacts of forcing from changes in orbits, atmospheric CO(2) concentration, ice sheets and the Atlantic meridional overturning circulation (AMOC) on hemispheric temperatures during the first half of the last deglaciation (22-14.3 kyr BP). Although based on a single model, our transient simulation with only orbital changes supports the Milankovitch theory in showing that the last deglaciation was initiated by rising insolation during spring and summer in the mid-latitude to high-latitude Northern Hemisphere and by terrestrial snow-albedo feedback. The simulation with all forcings best reproduces the timing and magnitude of surface temperature evolution in the Southern Hemisphere in deglacial proxy records. AMOC changes associated with an orbitally induced retreat of Northern Hemisphere ice sheets is the most plausible explanation for the early Southern Hemisphere deglacial warming and its lead over Northern Hemisphere temperature; the ensuing rise in atmospheric CO(2) concentration provided the critical feedback on global deglaciation.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉He, Feng -- Shakun, Jeremy D -- Clark, Peter U -- Carlson, Anders E -- Liu, Zhengyu -- Otto-Bliesner, Bette L -- Kutzbach, John E -- England -- Nature. 2013 Feb 7;494(7435):81-5. doi: 10.1038/nature11822.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Center for Climatic Research, Nelson Institute for Environmental Studies, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA. fenghe@wisc.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23389542" target="_blank"〉PubMed〈/a〉
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  • 98
    Publication Date: 2013-08-24
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Lawrence, Robert S -- Nachman, Keeve E -- Smith, Tyler J -- England -- Nature. 2013 Aug 22;500(7463):400. doi: 10.1038/500400b.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23969450" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Animals, Domestic/*microbiology ; Humans ; Meat/*microbiology ; Methicillin-Resistant Staphylococcus aureus/*isolation & purification ; Staphylococcal Infections/*transmission/*veterinary ; Zoonoses/*microbiology/*transmission
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  • 99
    Publication Date: 2013-09-27
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Witze, Alexandra -- England -- Nature. 2013 Sep 26;501(7468):480-2. doi: 10.1038/501480a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24067695" target="_blank"〉PubMed〈/a〉
    Keywords: Budgets ; Marine Biology/economics ; Oceanography/*economics ; Ships/*economics ; United States ; United States Government Agencies/economics
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  • 100
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    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2013-05-31
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Duncan, Robert C -- England -- Nature. 2013 May 30;497(7451):574-6. doi: 10.1038/497574a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23719459" target="_blank"〉PubMed〈/a〉
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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