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  • Time Factors  (538)
  • Nature Publishing Group (NPG)  (538)
  • American Institute of Physics (AIP)
  • 2010-2014  (538)
  • 1985-1989
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  • 1
    Publication Date: 2014-12-17
    Description: Nitrous oxide (N2O) is an important greenhouse gas and ozone-depleting substance that has anthropogenic as well as natural marine and terrestrial sources. The tropospheric N2O concentrations have varied substantially in the past in concert with changing climate on glacial-interglacial and millennial timescales. It is not well understood, however, how N2O emissions from marine and terrestrial sources change in response to varying environmental conditions. The distinct isotopic compositions of marine and terrestrial N2O sources can help disentangle the relative changes in marine and terrestrial N2O emissions during past climate variations. Here we present N2O concentration and isotopic data for the last deglaciation, from 16,000 to 10,000 years before present, retrieved from air bubbles trapped in polar ice at Taylor Glacier, Antarctica. With the help of our data and a box model of the N2O cycle, we find a 30 per cent increase in total N2O emissions from the late glacial to the interglacial, with terrestrial and marine emissions contributing equally to the overall increase and generally evolving in parallel over the last deglaciation, even though there is no a priori connection between the drivers of the two sources. However, we find that terrestrial emissions dominated on centennial timescales, consistent with a state-of-the-art dynamic global vegetation and land surface process model that suggests that during the last deglaciation emission changes were strongly influenced by temperature and precipitation patterns over land surfaces. The results improve our understanding of the drivers of natural N2O emissions and are consistent with the idea that natural N2O emissions will probably increase in response to anthropogenic warming.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Schilt, Adrian -- Brook, Edward J -- Bauska, Thomas K -- Baggenstos, Daniel -- Fischer, Hubertus -- Joos, Fortunat -- Petrenko, Vasilii V -- Schaefer, Hinrich -- Schmitt, Jochen -- Severinghaus, Jeffrey P -- Spahni, Renato -- Stocker, Thomas F -- England -- Nature. 2014 Dec 11;516(7530):234-7. doi: 10.1038/nature13971.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] College of Earth, Ocean, and Atmospheric Sciences, Oregon State University, Corvallis, Oregon 97331, USA [2] Climate and Environmental Physics, Physics Institute, and Oeschger Centre for Climate Change Research, University of Bern, 3012 Bern, Switzerland. ; College of Earth, Ocean, and Atmospheric Sciences, Oregon State University, Corvallis, Oregon 97331, USA. ; Scripps Institution of Oceanography, University of California, San Diego, California 92037, USA. ; Climate and Environmental Physics, Physics Institute, and Oeschger Centre for Climate Change Research, University of Bern, 3012 Bern, Switzerland. ; Department of Earth and Environmental Sciences, University of Rochester, Rochester, New York 14627, USA. ; National Institute of Water and Atmospheric Research, Wellington 6021, New Zealand.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25503236" target="_blank"〉PubMed〈/a〉
    Keywords: Antarctic Regions ; Aquatic Organisms/*metabolism ; Atmosphere/*chemistry ; Global Warming ; History, Ancient ; *Ice Cover ; Nitrogen Isotopes/analysis ; Nitrous Oxide/analysis/history/*metabolism ; Oxygen Isotopes/analysis ; Rain ; Temperature ; Time Factors
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  • 2
    Publication Date: 2014-04-18
    Description: Fertilization occurs when sperm and egg recognize each other and fuse to form a new, genetically distinct organism. The molecular basis of sperm-egg recognition is unknown, but is likely to require interactions between receptor proteins displayed on their surface. Izumo1 is an essential sperm cell-surface protein, but its receptor on the egg has not been described. Here we identify folate receptor 4 (Folr4) as the receptor for Izumo1 on the mouse egg, and propose to rename it Juno. We show that the Izumo1-Juno interaction is conserved within several mammalian species, including humans. Female mice lacking Juno are infertile and Juno-deficient eggs do not fuse with normal sperm. Rapid shedding of Juno from the oolemma after fertilization suggests a mechanism for the membrane block to polyspermy, ensuring eggs normally fuse with just a single sperm. Our discovery of an essential receptor pair at the nexus of conception provides opportunities for the rational development of new fertility treatments and contraceptives.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3998876/" 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/PMC3998876/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Bianchi, Enrica -- Doe, Brendan -- Goulding, David -- Wright, Gavin J -- 098051/Wellcome Trust/United Kingdom -- England -- Nature. 2014 Apr 24;508(7497):483-7. doi: 10.1038/nature13203. Epub 2014 Apr 16.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Cell Surface Signalling Laboratory, Wellcome Trust Sanger Institute, Hinxton, Cambridge, CB10 1SA, UK. ; Mouse Production Team, Wellcome Trust Sanger Institute, Hinxton, Cambridge, CB10 1SA, UK. ; Electron and Advanced Light Microscopy Suite, Wellcome Trust Sanger Institute, Hinxton, Cambridge, CB10 1SA, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24739963" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Conserved Sequence ; Evolution, Molecular ; Female ; Fertility/genetics ; Fertilization/genetics/*physiology ; Genes, Essential ; Glycosylphosphatidylinositols/metabolism ; Humans ; Immunoglobulins/*metabolism ; Infertility, Female/genetics ; Male ; Mammals ; Membrane Proteins/*metabolism ; Mice ; Oocytes/cytology/metabolism ; Ovum/cytology/*metabolism ; Parthenogenesis ; Receptors, Cell Surface/deficiency/genetics/*metabolism ; Sperm Injections, Intracytoplasmic ; Spermatozoa/*metabolism ; Time Factors
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  • 3
    Publication Date: 2014-12-18
    Description: Endocytosis is required for internalization of micronutrients and turnover of membrane components. Endophilin has been assigned as a component of clathrin-mediated endocytosis. Here we show in mammalian cells that endophilin marks and controls a fast-acting tubulovesicular endocytic pathway that is independent of AP2 and clathrin, activated upon ligand binding to cargo receptors, inhibited by inhibitors of dynamin, Rac, phosphatidylinositol-3-OH kinase, PAK1 and actin polymerization, and activated upon Cdc42 inhibition. This pathway is prominent at the leading edges of cells where phosphatidylinositol-3,4-bisphosphate-produced by the dephosphorylation of phosphatidylinositol-3,4,5-triphosphate by SHIP1 and SHIP2-recruits lamellipodin, which in turn engages endophilin. This pathway mediates the ligand-triggered uptake of several G-protein-coupled receptors such as alpha2a- and beta1-adrenergic, dopaminergic D3 and D4 receptors and muscarinic acetylcholine receptor 4, the receptor tyrosine kinases EGFR, HGFR, VEGFR, PDGFR, NGFR and IGF1R, as well as interleukin-2 receptor. We call this new endocytic route fast endophilin-mediated endocytosis (FEME).〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Boucrot, Emmanuel -- Ferreira, Antonio P A -- Almeida-Souza, Leonardo -- Debard, Sylvain -- Vallis, Yvonne -- Howard, Gillian -- Bertot, Laetitia -- Sauvonnet, Nathalie -- McMahon, Harvey T -- U105178805/Medical Research Council/United Kingdom -- Biotechnology and Biological Sciences Research Council/United Kingdom -- England -- Nature. 2015 Jan 22;517(7535):460-5. doi: 10.1038/nature14067. Epub 2014 Dec 17.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK [2] Institute of Structural and Molecular Biology, University College London &Birkbeck College, London WC1E 6BT, UK. ; Institute of Structural and Molecular Biology, University College London &Birkbeck College, London WC1E 6BT, UK. ; MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK. ; 1] Institute of Structural and Molecular Biology, University College London &Birkbeck College, London WC1E 6BT, UK [2] Department of Biology, Ecole Normale Superieure de Cachan, 94235 Cachan, France. ; Institut Pasteur, Unite de Pathogenie Moleculaire Microbienne, 28 rue du Docteur Roux, 75724 Paris Cedex 15, France.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25517094" target="_blank"〉PubMed〈/a〉
    Keywords: Actins/metabolism ; Acyltransferases/*metabolism ; Cell Line ; Clathrin ; Dynamins/metabolism ; *Endocytosis ; Humans ; Ligands ; Phosphatidylinositol Phosphates/metabolism ; Pseudopodia/metabolism ; Receptor Protein-Tyrosine Kinases/metabolism ; Receptors, G-Protein-Coupled/metabolism ; Receptors, Interleukin-2/metabolism ; Signal Transduction ; Time Factors
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  • 4
    Publication Date: 2014-11-05
    Description: Establishing the hippocampal cellular ensemble that represents an animal's environment involves the emergence and disappearance of place fields in specific CA1 pyramidal neurons, and the acquisition of different spatial firing properties across the active population. While such firing flexibility and diversity have been linked to spatial memory, attention and task performance, the cellular and network origin of these place cell features is unknown. Basic integrate-and-fire models of place firing propose that such features result solely from varying inputs to place cells, but recent studies suggest instead that place cells themselves may play an active role through regenerative dendritic events. However, owing to the difficulty of performing functional recordings from place cell dendrites, no direct evidence of regenerative dendritic events exists, leaving any possible connection to place coding unknown. Using multi-plane two-photon calcium imaging of CA1 place cell somata, axons and dendrites in mice navigating a virtual environment, here we show that regenerative dendritic events do exist in place cells of behaving mice, and, surprisingly, their prevalence throughout the arbour is highly spatiotemporally variable. Furthermore, we show that the prevalence of such events predicts the spatial precision and persistence or disappearance of place fields. This suggests that the dynamics of spiking throughout the dendritic arbour may play a key role in forming the hippocampal representation of space.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4289090/" 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/PMC4289090/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Sheffield, Mark E J -- Dombeck, Daniel A -- 1R01MH101297/MH/NIMH NIH HHS/ -- R01 MH101297/MH/NIMH NIH HHS/ -- England -- Nature. 2015 Jan 8;517(7533):200-4. doi: 10.1038/nature13871. Epub 2014 Oct 26.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Neurobiology, Northwestern University, Evanston, Illinois 60208, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25363782" target="_blank"〉PubMed〈/a〉
    Keywords: Action Potentials ; Animals ; Axons/metabolism ; Calcium/*metabolism ; *Calcium Signaling ; Dendrites/*metabolism ; Hippocampus/*cytology/*physiology ; Male ; Memory, Long-Term/physiology ; Mice ; Mice, Inbred C57BL ; Neuronal Plasticity/physiology ; Space Perception/*physiology ; Time Factors
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  • 5
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    Nature Publishing Group (NPG)
    Publication Date: 2014-07-06
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Power, Scott B -- England -- Nature. 2014 Jul 3;511(7507):38-9. doi: 10.1038/511038a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Bureau of Meteorology, GPO Box 1289, Melbourne, Victoria 3001, Australia.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24990739" target="_blank"〉PubMed〈/a〉
    Keywords: Global Warming/*statistics & numerical data ; *Models, Statistical ; *Models, Theoretical ; Probability ; *Temperature ; Time Factors ; *Uncertainty
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  • 6
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    Nature Publishing Group (NPG)
    Publication Date: 2014-07-24
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Gould, Julie -- England -- Nature. 2014 Jul 24;511(7510):S52-3. doi: 10.1038/511S52a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25054851" target="_blank"〉PubMed〈/a〉
    Keywords: Australia ; *Budgets/statistics & numerical data ; Education/economics/manpower ; Evaluation Studies as Topic ; New Zealand ; Research Personnel/economics/standards ; Research Support as Topic/*economics/statistics & numerical data ; Science/*economics/education/standards ; Time Factors ; Universities/economics/manpower
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  • 7
    Publication Date: 2014-03-29
    Description: Human alterations to nutrient cycles and herbivore communities are affecting global biodiversity dramatically. Ecological theory predicts these changes should be strongly counteractive: nutrient addition drives plant species loss through intensified competition for light, whereas herbivores prevent competitive exclusion by increasing ground-level light, particularly in productive systems. Here we use experimental data spanning a globally relevant range of conditions to test the hypothesis that herbaceous plant species losses caused by eutrophication may be offset by increased light availability due to herbivory. This experiment, replicated in 40 grasslands on 6 continents, demonstrates that nutrients and herbivores can serve as counteracting forces to control local plant diversity through light limitation, independent of site productivity, soil nitrogen, herbivore type and climate. Nutrient addition consistently reduced local diversity through light limitation, and herbivory rescued diversity at sites where it alleviated light limitation. Thus, species loss from anthropogenic eutrophication can be ameliorated in grasslands where herbivory increases ground-level light.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Borer, Elizabeth T -- Seabloom, Eric W -- Gruner, Daniel S -- Harpole, W Stanley -- Hillebrand, Helmut -- Lind, Eric M -- Adler, Peter B -- Alberti, Juan -- Anderson, T Michael -- Bakker, Jonathan D -- Biederman, Lori -- Blumenthal, Dana -- Brown, Cynthia S -- Brudvig, Lars A -- Buckley, Yvonne M -- Cadotte, Marc -- Chu, Chengjin -- Cleland, Elsa E -- Crawley, Michael J -- Daleo, Pedro -- Damschen, Ellen I -- Davies, Kendi F -- DeCrappeo, Nicole M -- Du, Guozhen -- Firn, Jennifer -- Hautier, Yann -- Heckman, Robert W -- Hector, Andy -- HilleRisLambers, Janneke -- Iribarne, Oscar -- Klein, Julia A -- Knops, Johannes M H -- La Pierre, Kimberly J -- Leakey, Andrew D B -- Li, Wei -- MacDougall, Andrew S -- McCulley, Rebecca L -- Melbourne, Brett A -- Mitchell, Charles E -- Moore, Joslin L -- Mortensen, Brent -- O'Halloran, Lydia R -- Orrock, John L -- Pascual, Jesus -- Prober, Suzanne M -- Pyke, David A -- Risch, Anita C -- Schuetz, Martin -- Smith, Melinda D -- Stevens, Carly J -- Sullivan, Lauren L -- Williams, Ryan J -- Wragg, Peter D -- Wright, Justin P -- Yang, Louie H -- England -- Nature. 2014 Apr 24;508(7497):517-20. doi: 10.1038/nature13144. Epub 2014 Mar 9.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Ecology, Evolution, and Behavior, University of Minnesota, St Paul, Minnesota 55108, USA. ; Department of Entomology, University of Maryland, College Park, Maryland 20742, USA. ; Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, Iowa 50011, USA. ; Institute for Chemistry and Biology of the Marine Environment, Carl-von- Ossietzky University, 26382 Wilhelmshaven, Oldenburg, Germany. ; Department of Wildland Resources and the Ecology Center, Utah State University, Logan, Utah 84322, USA. ; Instituto de Investigaciones Marinas y Costeras (IIMyC), Consejo Nacional de Investigaciones Cientificas y Tecnicas (CONICET), Mar del Plata 7600 , Argentina. ; Department of Biology, Wake Forest University, Winston-Salem, North Carolina 27109, USA. ; School of Environmental and Forest Sciences, University of Washington, Seattle, Washington 98195, USA. ; Agricultural Research Service (ARS), United States Department of Agriculture, Fort Collins, Colorado 80526, USA. ; Deptartment of Forest, Rangeland and Watershed Stewardship, Colorado State University, Fort Collins, Colorado 80523, USA. ; Department of Plant Biology, Michigan State University, East Lansing, Michigan 48824, USA. ; 1] ARC Centre of Excellence for Environmental Decisions, School of Biological Sciences, The University of Queensland, Queensland 4072, Australia [2] School of Natural Sciences, Trinity College Dublin, Dublin 2, Ireland. ; Department of Ecology and Evolutionary Biology, University of Toronto Scarborough, Ontario M1C 1A4, Canada. ; State Key Laboratory of Grassland and Agro-Ecosystems, Research Station of Alpine Meadow and Wetland Ecosystems, School of Life Sciences, Lanzhou University, Lanzhou, 730000 Gansu, China. ; Division of Biological Sciences, University of California, San Diego, California 92093, USA. ; Department of Biology, Imperial College at Silwood Park, Ascot, Berkshire SL5 7PY, UK. ; Department of Zoology, University of Wisconsin, Madison, Wisconsin 53706, USA. ; Department of Ecology and Evolutionary Biology, University of Colorado, Boulder Colorado 80309, USA. ; US Geological Survey, Forest and Rangeland Ecosystem Science Center, Corvallis, Oregon 97331, USA. ; Queensland University of Technology, Biogeosciences, Brisbane, Queensland 4001, Australia. ; Department of Biology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599, USA. ; Department of Plant Sciences, University of Oxford, Oxford OX1 3RB, UK. ; School of Biological Sciences, University of Nebraska, Lincoln, Nebraska 68588, USA. ; Berkeley Initiative for Global Change Biology, University of California, Berkeley 94704, USA. ; Department of Plant Biology, University of Illinois at Urbana-Champaign, llinois 61820, USA. ; Department of Integrative Biology, University of Guelph, Guelph, Ontario N1G 2W1, Canada. ; Department of Plant & Soil Sciences, University of Kentucky, Lexington, Kentucky 40546, USA. ; Australian Research Center for Urban Ecology, c/o School of Botany, University of Melbourne, Victoria 3010, Australia, and School of Biological Sciences, Monash University, Victoria 3800, Australia. ; Department of Zoology, Oregon State University, Corvallis, Oregon 97331, USA. ; CSIRO Ecosystem Sciences, Wembley, West Australia 6913, Australia. ; Swiss Federal Institute for Forest, Snow and Landscape Research, Birmensdorf 8903, Switzerland. ; Lancaster Environment Center, Lancaster University, Lancaster LA1 4YQ, UK. ; Department of Biology, Duke University, Durham, North Carolina 27708, USA. ; Department of Entomology, University of California, Davis, California 95616, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24670649" target="_blank"〉PubMed〈/a〉
    Keywords: *Biodiversity ; Climate ; Eutrophication/drug effects/*radiation effects ; Geography ; Herbivory/*physiology ; Human Activities ; Internationality ; *Light ; Nitrogen/metabolism/pharmacology ; Plants/drug effects/*metabolism/*radiation effects ; *Poaceae/drug effects/physiology/radiation effects ; Time Factors
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  • 8
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    Nature Publishing Group (NPG)
    Publication Date: 2014-04-04
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Gibney, Elizabeth -- England -- Nature. 2014 Apr 3;508(7494):19-20. doi: 10.1038/508019a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24695294" target="_blank"〉PubMed〈/a〉
    Keywords: Advisory Committees ; Europe ; Exobiology/instrumentation/*methods ; *Extraterrestrial Environment/chemistry ; *Mars ; Models, Theoretical ; Russia ; Space Flight/instrumentation/*methods ; Time Factors ; Water/analysis
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  • 9
    Publication Date: 2014-02-11
    Description: The reorganization of patterns of species diversity driven by anthropogenic climate change, and the consequences for humans, are not yet fully understood or appreciated. Nevertheless, changes in climate conditions are useful for predicting shifts in species distributions at global and local scales. Here we use the velocity of climate change to derive spatial trajectories for climatic niches from 1960 to 2009 (ref. 7) and from 2006 to 2100, and use the properties of these trajectories to infer changes in species distributions. Coastlines act as barriers and locally cooler areas act as attractors for trajectories, creating source and sink areas for local climatic conditions. Climate source areas indicate where locally novel conditions are not connected to areas where similar climates previously occurred, and are thereby inaccessible to climate migrants tracking isotherms: 16% of global surface area for 1960 to 2009, and 34% of ocean for the 'business as usual' climate scenario (representative concentration pathway (RCP) 8.5) representing continued use of fossil fuels without mitigation. Climate sink areas are where climate conditions locally disappear, potentially blocking the movement of climate migrants. Sink areas comprise 1.0% of ocean area and 3.6% of land and are prevalent on coasts and high ground. Using this approach to infer shifts in species distributions gives global and regional maps of the expected direction and rate of shifts of climate migrants, and suggests areas of potential loss of species richness.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Burrows, Michael T -- Schoeman, David S -- Richardson, Anthony J -- Molinos, Jorge Garcia -- Hoffmann, Ary -- Buckley, Lauren B -- Moore, Pippa J -- Brown, Christopher J -- Bruno, John F -- Duarte, Carlos M -- Halpern, Benjamin S -- Hoegh-Guldberg, Ove -- Kappel, Carrie V -- Kiessling, Wolfgang -- O'Connor, Mary I -- Pandolfi, John M -- Parmesan, Camille -- Sydeman, William J -- Ferrier, Simon -- Williams, Kristen J -- Poloczanska, Elvira S -- England -- Nature. 2014 Mar 27;507(7493):492-5. doi: 10.1038/nature12976. Epub 2014 Feb 9.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Ecology, Scottish Association for Marine Science, Scottish Marine Institute, Oban, Argyll, PA37 1QA, Scotland, UK. ; School of Science and Engineering, University of the Sunshine Coast, Maroochydore, Queensland QLD 4558, Australia. ; 1] Climate Adaptation Flagship, CSIRO Marine and Atmospheric Research, Ecosciences Precinct, GPO Box 2583, Brisbane, Queensland 4001, Australia [2] Centre for Applications in Natural Resource Mathematics (CARM), School of Mathematics and Physics, The University of Queensland, St Lucia, Queensland 4072, Australia. ; Department of Genetics, University of Melbourne, 30 Flemington Road, Parkville, Victoria 3010, Australia. ; Department of Biology, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599-3280, USA. ; 1] Institute of Biological, Environmental and Rural Sciences, Aberystwyth University, Aberystwyth SY23 3DA, UK [2] Centre for Marine Ecosystems Research, Edith Cowan University, Perth 6027, Australia. ; The Global Change Institute, The University of Queensland, Brisbane, Queensland 4072, Australia. ; 1] The UWA Oceans Institute, University of Western Australia, 35 Stirling Highway, Crawley 6009, Australia [2] Department of Global Change Research, IMEDEA (UIB-CSIC), Instituto Mediterraneo de Estudios Avanzados, Esporles 07190, Spain [3] Department of Marine Biology, Faculty of Marine Sciences, King Abdulaziz University, PO Box 80207, Jeddah 21589, Saudi Arabia. ; 1] Bren School of Environmental Science and Management, University of California, Santa Barbara, California 93106, USA [2] Imperial College London, Silwood Park Campus, Buckhurst Road, Ascot SL5 7PY, UK. ; Bren School of Environmental Science and Management, University of California, Santa Barbara, California 93106, USA. ; 1] GeoZentrum Nordbayern, Palaoumwelt, Universitat Erlangen-Nurnberg, Loewenichstrasse 28, 91054 Erlangen, Germany [2] Museum fur Naturkunde, Invalidenstr asse 43, 10115 Berlin, Germany. ; Department of Zoology and Biodiversity Research Centre, University of British Columbia, Vancouver V6T 1Z4, Canada. ; School of Biological Sciences, Australian Research Council Centre of Excellence for Coral Reef Studies, The University of Queensland, Brisbane, Queensland 4072, Australia. ; 1] Integrative Biology, University of Texas, Austin, Texas 78712, USA [2] Marine Institute, Drake Circus, University of Plymouth, Devon PL4 8AA, UK. ; Farallon Institute for Advanced Ecosystem Research, 101 H Street, Suite Q, Petaluma, California 94952, USA. ; Climate Adaptation Flagship, CSIRO Ecosystem Sciences, GPO Box 1700, Canberra, Australian Capital Territory 2601, Australia. ; Climate Adaptation Flagship, CSIRO Marine and Atmospheric Research, Ecosciences Precinct, GPO Box 2583, Brisbane, Queensland 4001, Australia.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24509712" target="_blank"〉PubMed〈/a〉
    Keywords: *Animal Migration ; Animals ; Australia ; Biodiversity ; *Climate ; *Climate Change ; *Ecosystem ; *Geographic Mapping ; *Geography ; Models, Theoretical ; Population Dynamics ; Seawater ; Temperature ; Time Factors ; Uncertainty
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  • 10
    Publication Date: 2014-09-26
    Description: Billions of organisms, from bacteria to humans, migrate each year and research on their migration biology is expanding rapidly through ever more sophisticated remote sensing technologies. However, little is known about how migratory performance develops through life for any organism. To date, age variation has been almost systematically simplified into a dichotomous comparison between recently born juveniles at their first migration versus adults of unknown age. These comparisons have regularly highlighted better migratory performance by adults compared with juveniles, but it is unknown whether such variation is gradual or abrupt and whether it is driven by improvements within the individual, by selective mortality of poor performers, or both. Here we exploit the opportunity offered by long-term monitoring of individuals through Global Positioning System (GPS) satellite tracking to combine within-individual and cross-sectional data on 364 migration episodes from 92 individuals of a raptorial bird, aged 1-27 years old. We show that the development of migratory behaviour follows a consistent trajectory, more gradual and prolonged than previously appreciated, and that this is promoted by both individual improvements and selective mortality, mainly operating in early life and during the pre-breeding migration. Individuals of different age used different travelling tactics and varied in their ability to exploit tailwinds or to cope with wind drift. All individuals seemed aligned along a race with their contemporary peers, whose outcome was largely determined by the ability to depart early, affecting their subsequent recruitment, reproduction and survival. Understanding how climate change and human action can affect the migration of younger animals may be the key to managing and forecasting the declines of many threatened migrants.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Sergio, Fabrizio -- Tanferna, Alessandro -- De Stephanis, Renaud -- Jimenez, Lidia Lopez -- Blas, Julio -- Tavecchia, Giacomo -- Preatoni, Damiano -- Hiraldo, Fernando -- England -- Nature. 2014 Nov 20;515(7527):410-3. doi: 10.1038/nature13696. Epub 2014 Sep 24.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Conservation Biology, Estacion Biologica de Donana-CSIC, Avenida Americo Vespucio, 41092 Seville, Spain. ; Population Ecology Group, Institute for Mediterranean Studies (IMEDEA), CSIC-UIB, 07190 Esporles, Spain. ; Department of Theoretical and Applied Sciences, Insubria University, 21100 Varese, Italy.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25252973" target="_blank"〉PubMed〈/a〉
    Keywords: Africa ; Age Factors ; Aging/*physiology ; Animal Migration/*physiology ; Animals ; Conservation of Natural Resources ; Geographic Information Systems ; Global Warming ; Human Activities ; Raptors/*physiology ; Reproduction/physiology ; Spain ; Survival Rate ; Time Factors ; Wind
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  • 11
    facet.materialart.
    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2014-09-19
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Gilbert, Natasha -- England -- Nature. 2014 Sep 18;513(7518):292. doi: 10.1038/513292a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25230627" target="_blank"〉PubMed〈/a〉
    Keywords: Acclimatization/*genetics/*physiology ; Agriculture/*methods ; *Breeding ; Crops, Agricultural/*genetics/*physiology ; Disasters ; Droughts ; Food, Genetically Modified ; Plants, Genetically Modified/genetics/physiology ; Rain ; Time Factors ; Zea mays/genetics/physiology
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  • 12
    Publication Date: 2014-11-14
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Whitty, Christopher J M -- Farrar, Jeremy -- Ferguson, Neil -- Edmunds, W John -- Piot, Peter -- Leach, Melissa -- Davies, Sally C -- England -- Nature. 2014 Nov 13;515(7526):192-4. doi: 10.1038/515192a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25391946" target="_blank"〉PubMed〈/a〉
    Keywords: Bed Occupancy/statistics & numerical data ; Compassionate Use Trials/trends ; Contact Tracing/*methods ; Ebola Vaccines/supply & distribution ; Facility Design and Construction ; Great Britain ; Hemorrhagic Fever, Ebola/diagnosis/epidemiology/*prevention & ; control/*transmission ; Humans ; Models, Biological ; Patient Isolation/*methods ; Quarantine/*methods ; Self Report ; Sierra Leone/epidemiology ; Time Factors
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  • 13
    Publication Date: 2014-07-22
    Description: The viral reservoir represents a critical challenge for human immunodeficiency virus type 1 (HIV-1) eradication strategies. However, it remains unclear when and where the viral reservoir is seeded during acute infection and the extent to which it is susceptible to early antiretroviral therapy (ART). Here we show that the viral reservoir is seeded rapidly after mucosal simian immunodeficiency virus (SIV) infection of rhesus monkeys and before systemic viraemia. We initiated suppressive ART in groups of monkeys on days 3, 7, 10 and 14 after intrarectal SIVMAC251 infection. Treatment with ART on day 3 blocked the emergence of viral RNA and proviral DNA in peripheral blood and also substantially reduced levels of proviral DNA in lymph nodes and gastrointestinal mucosa as compared with treatment at later time points. In addition, treatment on day 3 abrogated the induction of SIV-specific humoral and cellular immune responses. Nevertheless, after discontinuation of ART following 24 weeks of fully suppressive therapy, virus rebounded in all animals, although the monkeys that were treated on day 3 exhibited a delayed viral rebound as compared with those treated on days 7, 10 and 14. The time to viral rebound correlated with total viraemia during acute infection and with proviral DNA at the time of ART discontinuation. These data demonstrate that the viral reservoir is seeded rapidly after intrarectal SIV infection of rhesus monkeys, during the 'eclipse' phase, and before detectable viraemia. This strikingly early seeding of the refractory viral reservoir raises important new challenges for HIV-1 eradication strategies.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4126858/" 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/PMC4126858/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Whitney, James B -- Hill, Alison L -- Sanisetty, Srisowmya -- Penaloza-MacMaster, Pablo -- Liu, Jinyan -- Shetty, Mayuri -- Parenteau, Lily -- Cabral, Crystal -- Shields, Jennifer -- Blackmore, Stephen -- Smith, Jeffrey Y -- Brinkman, Amanda L -- Peter, Lauren E -- Mathew, Sheeba I -- Smith, Kaitlin M -- Borducchi, Erica N -- Rosenbloom, Daniel I S -- Lewis, Mark G -- Hattersley, Jillian -- Li, Bei -- Hesselgesser, Joseph -- Geleziunas, Romas -- Robb, Merlin L -- Kim, Jerome H -- Michael, Nelson L -- Barouch, Dan H -- AI060354/AI/NIAID NIH HHS/ -- AI078526/AI/NIAID NIH HHS/ -- AI084794/AI/NIAID NIH HHS/ -- AI095985/AI/NIAID NIH HHS/ -- AI096040/AI/NIAID NIH HHS/ -- AI100645/AI/NIAID NIH HHS/ -- R01 AI084794/AI/NIAID NIH HHS/ -- R56 AI091514/AI/NIAID NIH HHS/ -- T32 AI007245/AI/NIAID NIH HHS/ -- U19 AI078526/AI/NIAID NIH HHS/ -- U19 AI095985/AI/NIAID NIH HHS/ -- U19 AI096040/AI/NIAID NIH HHS/ -- UM1 AI100645/AI/NIAID NIH HHS/ -- UM1 AI100663/AI/NIAID NIH HHS/ -- England -- Nature. 2014 Aug 7;512(7512):74-7. doi: 10.1038/nature13594. Epub 2014 Jul 20.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Center for Virology and Vaccine Research, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, Massachusetts 02215, USA [2] Ragon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts 02139, USA. ; Program for Evolutionary Dynamics, Harvard University, Cambridge, Massachusetts 02138 USA. ; Center for Virology and Vaccine Research, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, Massachusetts 02215, USA. ; Bioqual, Rockville, Maryland 20852, USA. ; Gilead Sciences, Foster City, California 94404, USA. ; US Military HIV Research Program, Walter Reed Army Institute of Research, Silver Spring, Maryland 20910, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25042999" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Anti-Retroviral Agents/administration & dosage/pharmacology/therapeutic use ; Carrier State/drug therapy/virology ; DNA, Viral/analysis/biosynthesis/blood ; Disease Models, Animal ; Female ; Kinetics ; Macaca mulatta/immunology/*virology ; Male ; Proviruses/genetics ; RNA, Viral/blood ; Rectum/virology ; Simian Acquired Immunodeficiency Syndrome/drug therapy/immunology/*virology ; Simian Immunodeficiency Virus/drug effects/*growth & ; development/immunology/physiology ; Time Factors ; Treatment Failure ; *Viral Load/drug effects ; Viremia/drug therapy/*virology ; Virus Replication/drug effects
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  • 14
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    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2014-02-14
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Sharpe, Katherine -- England -- Nature. 2014 Feb 13;506(7487):146-8. doi: 10.1038/506146a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24522583" target="_blank"〉PubMed〈/a〉
    Keywords: *Achievement ; Antisocial Personality Disorder/prevention & control ; Attention/drug effects ; Attention Deficit Disorder with Hyperactivity/*drug ; therapy/physiopathology/psychology ; Biomedical Enhancement ; Child ; Child, Preschool ; Educational Measurement ; Humans ; Longitudinal Studies ; Memory, Short-Term/drug effects ; Methylphenidate/adverse effects/pharmacology/therapeutic use ; Randomized Controlled Trials as Topic ; Time Factors
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  • 15
    Publication Date: 2014-02-07
    Description: Although it is generally agreed that the Arctic flora is among the youngest and least diverse on Earth, the processes that shaped it are poorly understood. Here we present 50 thousand years (kyr) of Arctic vegetation history, derived from the first large-scale ancient DNA metabarcoding study of circumpolar plant diversity. For this interval we also explore nematode diversity as a proxy for modelling vegetation cover and soil quality, and diets of herbivorous megafaunal mammals, many of which became extinct around 10 kyr bp (before present). For much of the period investigated, Arctic vegetation consisted of dry steppe-tundra dominated by forbs (non-graminoid herbaceous vascular plants). During the Last Glacial Maximum (25-15 kyr bp), diversity declined markedly, although forbs remained dominant. Much changed after 10 kyr bp, with the appearance of moist tundra dominated by woody plants and graminoids. Our analyses indicate that both graminoids and forbs would have featured in megafaunal diets. As such, our findings question the predominance of a Late Quaternary graminoid-dominated Arctic mammoth steppe.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Willerslev, Eske -- Davison, John -- Moora, Mari -- Zobel, Martin -- Coissac, Eric -- Edwards, Mary E -- Lorenzen, Eline D -- Vestergard, Mette -- Gussarova, Galina -- Haile, James -- Craine, Joseph -- Gielly, Ludovic -- Boessenkool, Sanne -- Epp, Laura S -- Pearman, Peter B -- Cheddadi, Rachid -- Murray, David -- Brathen, Kari Anne -- Yoccoz, Nigel -- Binney, Heather -- Cruaud, Corinne -- Wincker, Patrick -- Goslar, Tomasz -- Alsos, Inger Greve -- Bellemain, Eva -- Brysting, Anne Krag -- Elven, Reidar -- Sonstebo, Jorn Henrik -- Murton, Julian -- Sher, Andrei -- Rasmussen, Morten -- Ronn, Regin -- Mourier, Tobias -- Cooper, Alan -- Austin, Jeremy -- Moller, Per -- Froese, Duane -- Zazula, Grant -- Pompanon, Francois -- Rioux, Delphine -- Niderkorn, Vincent -- Tikhonov, Alexei -- Savvinov, Grigoriy -- Roberts, Richard G -- MacPhee, Ross D E -- Gilbert, M Thomas P -- Kjaer, Kurt H -- Orlando, Ludovic -- Brochmann, Christian -- Taberlet, Pierre -- England -- Nature. 2014 Feb 6;506(7486):47-51. doi: 10.1038/nature12921.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Centre for GeoGenetics, Natural History Museum, University of Copenhagen, Oster Voldgade 5-7, DK-1350 Copenhagen K, Denmark [2]. ; 1] Department of Botany, Institute of Ecology and Earth Sciences, University of Tartu, 40 Lai Street, 51005 Tartu, Estonia [2]. ; 1] Laboratoire d'Ecologie Alpine (LECA) CNRS UMR 5553, University Joseph Fourier, BP 53, 38041 Grenoble Cedex 9, France [2]. ; 1] Geography and Environment, University of Southampton, Southampton SO17 1BJ, UK [2]. ; 1] Centre for GeoGenetics, Natural History Museum, University of Copenhagen, Oster Voldgade 5-7, DK-1350 Copenhagen K, Denmark [2] Department of Integrative Biology, University of California Berkeley, 1005 Valley Life Sciences Building, Berkeley, 94720 California, USA [3]. ; 1] National Centre for Biosystematics, Natural History Museum, University of Oslo, PO Box 1172, Blindern, NO-0318 Oslo, Norway [2] Department of Botany, Saint Petersburg State University, Universitetskaya nab. 7/9, 199034 Saint Petersburg, Russia [3]. ; 1] Centre for GeoGenetics, Natural History Museum, University of Copenhagen, Oster Voldgade 5-7, DK-1350 Copenhagen K, Denmark [2] Ancient DNA Laboratory, Veterinary and Life Sciences School, Murdoch University, 90 South Street, Perth, 6150 Western Australia, Australia [3]. ; Division of Biology, Kansas State University, Manhattan, 66506-4901 Kansas, USA. ; Laboratoire d'Ecologie Alpine (LECA) CNRS UMR 5553, University Joseph Fourier, BP 53, 38041 Grenoble Cedex 9, France. ; 1] National Centre for Biosystematics, Natural History Museum, University of Oslo, PO Box 1172, Blindern, NO-0318 Oslo, Norway [2] Centre for Ecological and Evolutionary Synthesis, Department of Biosciences, University of Oslo, PO Box 1066, Blindern, NO-0318 Oslo, Norway (S.B.); Alfred Wegener Institute, Helmholtz Centre for Polar and Marine Research, Research Unit Potsdam, Telegrafenberg A 43, 14473 Potsdam, Germany (L.S.E.); SpyGen, Savoie Technolac, 17 allee du lac Saint Andre, BP 274, 73375 Le Bourget-du-Lac Cedex, France (E.B.). ; Landscape Dynamics Unit, Swiss Federal Research Institute WSL, Zurcherstrasse 111, CH-8903 Birmensdorf, Switzerland. ; Institut des Sciences de l'Evolution de Montpellier, UMR 5554 Universite Montpellier 2, Bat.22, CC061, Place Eugene Bataillon, 34095 Montpellier Cedex 5, France. ; University of Alaska Museum of the North, Fairbanks, 99775-6960 Alaska, USA. ; Department of Arctic and Marine Biology, UiT, The Arctic University of Norway, NO-9037 Tromso, Norway. ; Geography and Environment, University of Southampton, Southampton SO17 1BJ, UK. ; Genoscope, Institut de Genomique du Commissariat a l'Energie Atomique (CEA), 91000 Evry, France. ; 1] Adam Mickiewicz University, Faculty of Physics, Umultowska 85, 61-614 Poznan, Poland [2] Poznan Radiocarbon Laboratory, Poznan Science and Technology Park, Rubiez 46, 61-612 Poznan, Poland. ; Tromso University Museum, NO-9037 Tromso, Norway. ; Centre for Ecological and Evolutionary Synthesis, Department of Biosciences, University of Oslo, P.O. Box 1066, Blindern, NO-0316 Oslo, Norway. ; National Centre for Biosystematics, Natural History Museum, University of Oslo, PO Box 1172, Blindern, NO-0318 Oslo, Norway. ; Permafrost Laboratory, Department of Geography, University of Sussex, Brighton BN1 9QJ, UK. ; 1] Institute of Ecology and Evolution, Russian Academy of Sciences, 33 Leninsky Prospect, 119071 Moscow, Russia [2]. ; Centre for GeoGenetics, Natural History Museum, University of Copenhagen, Oster Voldgade 5-7, DK-1350 Copenhagen K, Denmark. ; Department of Biology, Terrestrial Ecology, Universitetsparken 15, DK- 2100 Copenhagen O, Denmark. ; Australian Centre for Ancient DNA, School of Earth & Environmental Sciences, University of Adelaide, Adelaide, 5005 South Australia, Australia. ; Department of Geology/Quaternary Sciences, Lund University Solvegatan 12, SE-223 62 Lund, Sweden. ; Department of Earth and Atmospheric Sciences, University of Alberta, T6G 2E3 Edmonton, Alberta, Canada. ; Government of Yukon, Department of Tourism and Culture, Yukon Palaeontology Program, PO Box 2703 L2A, Y1A 2C6 Whitehorse, Yukon Territory, Canada. ; INRA, UMR1213 Herbivores, F-63122 Saint-Genes-Champanelle, France. ; Zoological Institute of Russian Academy of Sciences, Universitetskaya nab. 1, 199034 Saint-Petersburg, Russia. ; Institute of Applied Ecology of the North of North-Eastern Federal University, Belinskogo Street 58, 677000 Yakutsk, Republic of Sakha (Yakutia), Russia. ; Centre for Archaeological Science, School of Earth and Environmental Sciences, University of Wollongong, Wollongong, 2522 New South Wales, Australia. ; Division of Vertebrate Zoology/Mammalogy, American Museum of Natural History, New York, 10024 New York, USA. ; 1] National Centre for Biosystematics, Natural History Museum, University of Oslo, PO Box 1172, Blindern, NO-0318 Oslo, Norway [2].〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24499916" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Arctic Regions ; *Biodiversity ; Bison/physiology ; Cold Climate ; *Diet ; Freezing ; *Herbivory ; High-Throughput Nucleotide Sequencing ; Horses/physiology ; Mammoths/physiology ; *Nematoda/classification/genetics/isolation & purification ; *Plants/classification/genetics ; Poaceae/genetics/growth & development ; Soil ; Time Factors ; Yukon Territory
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  • 16
    Publication Date: 2014-05-09
    Description: During immune responses, B lymphocytes clonally expand and undergo secondary diversification of their immunoglobulin genes in germinal centres (GCs). High-affinity B cells are expanded through iterative interzonal cycles of division and hypermutation in the GC dark zone followed by migration to the GC light zone, where they are selected on the basis of affinity to return to the dark zone. Here we combine a transgenic strategy to measure cell division and a photoactivatable fluorescent reporter to examine whether the extent of clonal expansion and hypermutation are regulated during interzonal GC cycles. We find that both cell division and hypermutation are directly proportional to the amount of antigen captured and presented by GC B cells to follicular helper T cells in the light zone. Our data explain how GC B cells with the highest affinity for antigen are selectively expanded and diversified.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4271732/" 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/PMC4271732/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Gitlin, Alexander D -- Shulman, Ziv -- Nussenzweig, Michel C -- 1UM1 AI100663-01/AI/NIAID NIH HHS/ -- AI037526-19/AI/NIAID NIH HHS/ -- AI072529-06/AI/NIAID NIH HHS/ -- R01 AI037526/AI/NIAID NIH HHS/ -- R01 AI072529/AI/NIAID NIH HHS/ -- T32GM07739/GM/NIGMS NIH HHS/ -- UM1 AI100663/AI/NIAID NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2014 May 29;509(7502):637-40. doi: 10.1038/nature13300. Epub 2014 May 4.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Laboratory of Molecular Immunology, The Rockefeller University, New York, New York 10065, USA. ; 1] Laboratory of Molecular Immunology, The Rockefeller University, New York, New York 10065, USA [2] Howard Hughes Medical Institute, The Rockefeller University, New York, New York 10065, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24805232" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Antibody Affinity/immunology ; Antigen Presentation/immunology ; Antigens/immunology ; B-Lymphocytes/*cytology/immunology/*metabolism ; Cell Movement ; Cell Proliferation ; *Clonal Selection, Antigen-Mediated/immunology ; Clone Cells/cytology/immunology/metabolism ; Genes, Reporter/genetics ; Germinal Center/*cytology/*immunology ; Male ; Mice ; S Phase ; Somatic Hypermutation, Immunoglobulin/*genetics ; T-Lymphocytes, Helper-Inducer/cytology/immunology ; Time Factors
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  • 17
    Publication Date: 2014-10-03
    Description: Bone-marrow transplantation is an effective cell therapy but requires myeloablation, which increases infection risk and mortality. Recent lineage-tracing studies documenting that resident macrophage populations self-maintain independently of haematological progenitors prompted us to consider organ-targeted, cell-specific therapy. Here, using granulocyte-macrophage colony-stimulating factor (GM-CSF) receptor-beta-deficient (Csf2rb(-/-)) mice that develop a myeloid cell disorder identical to hereditary pulmonary alveolar proteinosis (hPAP) in children with CSF2RA or CSF2RB mutations, we show that pulmonary macrophage transplantation (PMT) of either wild-type or Csf2rb-gene-corrected macrophages without myeloablation was safe and well-tolerated and that one administration corrected the lung disease, secondary systemic manifestations and normalized disease-related biomarkers, and prevented disease-specific mortality. PMT-derived alveolar macrophages persisted for at least one year as did therapeutic effects. Our findings identify mechanisms regulating alveolar macrophage population size in health and disease, indicate that GM-CSF is required for phenotypic determination of alveolar macrophages, and support translation of PMT as the first specific therapy for children with hPAP.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4236859/" 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/PMC4236859/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Suzuki, Takuji -- Arumugam, Paritha -- Sakagami, Takuro -- Lachmann, Nico -- Chalk, Claudia -- Sallese, Anthony -- Abe, Shuichi -- Trapnell, Cole -- Carey, Brenna -- Moritz, Thomas -- Malik, Punam -- Lutzko, Carolyn -- Wood, Robert E -- Trapnell, Bruce C -- 8UL1TR000077-05/TR/NCATS NIH HHS/ -- AR-47363/AR/NIAMS NIH HHS/ -- DK78392/DK/NIDDK NIH HHS/ -- DK90971/DK/NIDDK NIH HHS/ -- P30 AR047363/AR/NIAMS NIH HHS/ -- R01 HL069549/HL/NHLBI NIH HHS/ -- R01 HL085453/HL/NHLBI NIH HHS/ -- R01 HL118342/HL/NHLBI NIH HHS/ -- R01HL085453/HL/NHLBI NIH HHS/ -- R01HL118342/HL/NHLBI NIH HHS/ -- R21 HL106134/HL/NHLBI NIH HHS/ -- U54 HL127672/HL/NHLBI NIH HHS/ -- England -- Nature. 2014 Oct 23;514(7523):450-4. doi: 10.1038/nature13807. Epub 2014 Oct 1.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Division of Pulmonary Biology, Perinatal Institute, Cincinnati Children's Hospital Medical Center, 3333 Burnet Avenue, Cincinnati, Ohio 45229, USA. ; Division of Experimental Hematology, Cincinnati Children's Hospital Medical Center, 3333 Burnet Avenue, Cincinnati, Ohio 45229, USA. ; RG Reprograming and Gene Therapy, Institute of Experimental Hematology, Hannover Medical School, Carl Neuberg-Str. 1, 30625 Hannover, Germany. ; 1] Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, Massachusetts 02138, USA [2] Broad Institute of Massachusetts Institute of Technology and Harvard University, Cambridge, Massachusetts 02138, USA. ; Division of Pulmonary Medicine, Cincinnati Children's Hospital Medical Center, 3333 Burnet Avenue, Cincinnati, Ohio 45229, USA. ; 1] Division of Pulmonary Biology, Perinatal Institute, Cincinnati Children's Hospital Medical Center, 3333 Burnet Avenue, Cincinnati, Ohio 45229, USA [2] Division of Pulmonary Medicine, Cincinnati Children's Hospital Medical Center, 3333 Burnet Avenue, Cincinnati, Ohio 45229, USA [3] Division of Pulmonary, Critical Care, and Sleep Medicine, University of Cincinnati Medical Center, 3333 Burnet Avenue, Cincinnati, Ohio 45229, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25274301" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Cell Separation ; *Cell Transplantation ; Cytokine Receptor Common beta Subunit/deficiency/*genetics ; Female ; *Genetic Therapy ; Lung/*cytology/metabolism/pathology ; Macrophages, Alveolar/*metabolism/*transplantation ; Male ; Mice ; Oligonucleotide Array Sequence Analysis ; Phenotype ; Pulmonary Alveolar Proteinosis/genetics/pathology/*therapy ; Time Factors
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  • 18
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    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2014-08-22
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Callaway, Ewen -- England -- Nature. 2014 Aug 21;512(7514):242. doi: 10.1038/512242a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25143094" target="_blank"〉PubMed〈/a〉
    Keywords: Acculturation/history ; Animals ; Bone and Bones/*chemistry ; Europe ; *Fossils ; History, Ancient ; Humans ; Hybridization, Genetic ; *Neanderthals/genetics ; Radiometric Dating ; Time Factors ; Uncertainty
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  • 19
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    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2014-12-17
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Witze, Alexandra -- England -- Nature. 2014 Dec 11;516(7530):151-2. doi: 10.1038/516151a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25503211" target="_blank"〉PubMed〈/a〉
    Keywords: *Communication ; Disaster Planning/economics/*methods ; Disasters/economics/*prevention & control ; Emergency Shelter ; Humans ; Indian Ocean ; Indonesia ; Maps as Topic ; Pilot Projects ; Time Factors ; *Tsunamis/economics
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  • 20
    Publication Date: 2014-05-03
    Description: The response of the tropical climate in the Indian Ocean realm to abrupt climate change events in the North Atlantic Ocean is contentious. Repositioning of the intertropical convergence zone is thought to have been responsible for changes in tropical hydroclimate during North Atlantic cold spells, but the dearth of high-resolution records outside the monsoon realm in the Indian Ocean precludes a full understanding of this remote relationship and its underlying mechanisms. Here we show that slowdowns of the Atlantic meridional overturning circulation during Heinrich stadials and the Younger Dryas stadial affected the tropical Indian Ocean hydroclimate through changes to the Hadley circulation including a southward shift in the rising branch (the intertropical convergence zone) and an overall weakening over the southern Indian Ocean. Our results are based on new, high-resolution sea surface temperature and seawater oxygen isotope records of well-dated sedimentary archives from the tropical eastern Indian Ocean for the past 45,000 years, combined with climate model simulations of Atlantic circulation slowdown under Marine Isotope Stages 2 and 3 boundary conditions. Similar conditions in the east and west of the basin rule out a zonal dipole structure as the dominant forcing of the tropical Indian Ocean hydroclimate of millennial-scale events. Results from our simulations and proxy data suggest dry conditions in the northern Indian Ocean realm and wet and warm conditions in the southern realm during North Atlantic cold spells.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Mohtadi, Mahyar -- Prange, Matthias -- Oppo, Delia W -- De Pol-Holz, Ricardo -- Merkel, Ute -- Zhang, Xiao -- Steinke, Stephan -- Luckge, Andreas -- England -- Nature. 2014 May 1;509(7498):76-80. doi: 10.1038/nature13196.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉MARUM-Center for Marine Environmental Sciences, University of Bremen, 28359 Bremen, Germany. ; Geology and Geophysics, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts 02543, USA. ; Department of Oceanography, University of Concepcion, Concepcion, Chile. ; Federal Institute for Geosciences and Natural Resources, 30655 Hannover, Germany.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24784218" target="_blank"〉PubMed〈/a〉
    Keywords: Africa, Eastern ; Air ; Atlantic Ocean ; Borneo ; Geologic Sediments/chemistry ; Greenland ; History, 19th Century ; History, 20th Century ; History, 21st Century ; History, Ancient ; Humidity ; Hydrology ; Ice Cover ; Indian Ocean ; Indonesia ; Lakes ; *Models, Theoretical ; Oxygen Isotopes ; Rain ; Salinity ; Seasons ; Seawater/analysis/chemistry ; Temperature ; Time Factors ; *Tropical Climate ; Water Movements
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  • 21
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    Nature Publishing Group (NPG)
    Publication Date: 2014-10-28
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ravn, Karen -- England -- Nature. 2014 Oct 23;514(7523):523-5.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25346972" target="_blank"〉PubMed〈/a〉
    Keywords: *Career Mobility ; Commerce/*education ; Curriculum ; *Education, Graduate ; Research Personnel/*education ; Time Factors ; United States
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  • 22
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    Nature Publishing Group (NPG)
    Publication Date: 2014-10-17
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Heymann, David L -- England -- Nature. 2014 Oct 16;514(7522):299-300. doi: 10.1038/514299a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25318509" target="_blank"〉PubMed〈/a〉
    Keywords: Africa, Western/epidemiology ; Cities/epidemiology ; *Clinical Trials as Topic/ethics ; Congo/epidemiology ; *Contact Tracing ; Cross Infection/epidemiology ; Disease Outbreaks/prevention & control/statistics & numerical data ; Fever/diagnosis ; Funeral Rites ; *Hemorrhagic Fever, Ebola/diagnosis/epidemiology/prevention & ; control/therapy/transmission ; History, 20th Century ; History, 21st Century ; Humans ; Plasmapheresis/utilization ; Protective Clothing ; *Quarantine ; Rural Population/statistics & numerical data ; Survivors ; Time Factors ; Urban Population/statistics & numerical data ; World Health Organization
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  • 23
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    Nature Publishing Group (NPG)
    Publication Date: 2014-10-04
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Reardon, Sara -- England -- Nature. 2014 Oct 2;514(7520):13-4. doi: 10.1038/514013a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25279893" target="_blank"〉PubMed〈/a〉
    Keywords: Exome/genetics ; Genetic Diseases, Inborn/*diagnosis/*genetics ; *Genetic Testing/trends ; Genomics/trends ; Humans ; Infant ; Infant, Newborn ; Infant, Newborn, Diseases/*diagnosis/*genetics ; Intensive Care Units, Neonatal ; Male ; National Institutes of Health (U.S.) ; *Neonatal Screening/trends ; Time Factors ; United States ; United States Food and Drug Administration
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  • 24
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    Nature Publishing Group (NPG)
    Publication Date: 2014-07-25
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Witze, Alexandra -- England -- Nature. 2014 Jul 24;511(7510):396. doi: 10.1038/511396a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25056044" target="_blank"〉PubMed〈/a〉
    Keywords: Exobiology ; *Extraterrestrial Environment/chemistry ; *Mars ; Space Flight ; Time Factors
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  • 25
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    Nature Publishing Group (NPG)
    Publication Date: 2014-09-26
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Reardon, Sara -- England -- Nature. 2014 Sep 25;513(7519):471. doi: 10.1038/513471a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25254455" target="_blank"〉PubMed〈/a〉
    Keywords: Animal Diseases/drug therapy/microbiology/*prevention & control ; Animals ; Animals, Domestic/growth & development/microbiology ; *Anti-Bacterial Agents/administration & dosage/pharmacology/therapeutic use ; Bacterial Infections/*drug therapy/prevention & control/transmission/veterinary ; Clinical Trials as Topic ; *Drug Discovery ; *Drug Resistance, Microbial/drug effects ; Government Regulation ; Humans ; Time Factors ; United States ; United States Food and Drug Administration/legislation & jurisprudence ; Zoonoses/microbiology/prevention & control
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  • 26
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    Nature Publishing Group (NPG)
    Publication Date: 2014-04-18
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Anthes, Emily -- England -- Nature. 2014 Apr 17;508(7496):S54-6. doi: 10.1038/508S54a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24740127" target="_blank"〉PubMed〈/a〉
    Keywords: Adult ; Anti-Obesity Agents/pharmacology/therapeutic use ; Body Mass Index ; Child ; Chronic Disease/therapy ; Diet ; Exercise/physiology ; Humans ; Life Style ; Obesity/diet therapy/drug therapy/prevention & control/*therapy ; Randomized Controlled Trials as Topic ; Time Factors ; *Weight Gain/drug effects ; Weight Loss ; Weight Reduction Programs
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  • 27
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    Nature Publishing Group (NPG)
    Publication Date: 2014-06-13
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Witze, Alexandra -- England -- Nature. 2014 Jun 12;510(7504):196-7. doi: 10.1038/510196a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24919901" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Environmental Monitoring/instrumentation/methods ; Humans ; Hypogravity ; Laboratories/*utilization ; Mice ; *Research/trends ; Russia ; *Spacecraft ; Time Factors ; United States ; United States National Aeronautics and Space Administration
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  • 28
    Publication Date: 2014-06-12
    Description: Spontaneous changes in the reading frame of translation are rare (frequency of 10(-3) to 10(-4) per codon), but can be induced by specific features in the messenger RNA (mRNA). In the presence of mRNA secondary structures, a heptanucleotide 'slippery sequence' usually defined by the motif X XXY YYZ, and (in some prokaryotic cases) mRNA sequences that base pair with the 3' end of the 16S ribosomal rRNA (internal Shine-Dalgarno sequences), there is an increased probability that a specific programmed change of frame occurs, wherein the ribosome shifts one nucleotide backwards into an overlapping reading frame (-1 frame) and continues by translating a new sequence of amino acids. Despite extensive biochemical and genetic studies, there is no clear mechanistic description for frameshifting. Here we apply single-molecule fluorescence to track the compositional and conformational dynamics of individual ribosomes at each codon during translation of a frameshift-inducing mRNA from the dnaX gene in Escherichia coli. Ribosomes that frameshift into the -1 frame are characterized by a tenfold longer pause in elongation compared to non-frameshifted ribosomes, which translate through unperturbed. During the pause, interactions of the ribosome with the mRNA stimulatory elements uncouple EF-G catalysed translocation from normal ribosomal subunit reverse-rotation, leaving the ribosome in a non-canonical intersubunit rotated state with an exposed codon in the aminoacyl-tRNA site (A site). tRNA(Lys) sampling and accommodation to the empty A site and EF-G action either leads to the slippage of the tRNAs into the -1 frame or maintains the ribosome into the 0 frame. Our results provide a general mechanistic and conformational framework for -1 frameshifting, highlighting multiple kinetic branchpoints during elongation.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4472451/" 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/PMC4472451/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Chen, Jin -- Petrov, Alexey -- Johansson, Magnus -- Tsai, Albert -- O'Leary, Sean E -- Puglisi, Joseph D -- GM099687/GM/NIGMS NIH HHS/ -- GM51266/GM/NIGMS NIH HHS/ -- R01 GM051266/GM/NIGMS NIH HHS/ -- R01 GM099687/GM/NIGMS NIH HHS/ -- England -- Nature. 2014 Aug 21;512(7514):328-32. doi: 10.1038/nature13428. Epub 2014 Jun 11.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Department of Applied Physics, Stanford University, Stanford, California 94305-4090, USA [2] Department of Structural Biology, Stanford University School of Medicine, Stanford, California 94305-5126, USA. ; Department of Structural Biology, Stanford University School of Medicine, Stanford, California 94305-5126, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24919156" target="_blank"〉PubMed〈/a〉
    Keywords: Bacterial Proteins/genetics ; Codon/genetics ; DNA Polymerase III/genetics ; Escherichia coli ; *Frameshifting, Ribosomal ; Kinetics ; *Peptide Chain Elongation, Translational ; Peptide Elongation Factor G/metabolism ; RNA, Messenger/genetics ; RNA, Transfer, Amino Acyl/metabolism ; Reading Frames/genetics ; Ribosome Subunits/chemistry/metabolism ; Ribosomes/chemistry/*metabolism ; Rotation ; Time Factors
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  • 29
    Publication Date: 2014-04-18
    Description: Ice volume (and hence sea level) and deep-sea temperature are key measures of global climate change. Sea level has been documented using several independent methods over the past 0.5 million years (Myr). Older periods, however, lack such independent validation; all existing records are related to deep-sea oxygen isotope (delta(18)O) data that are influenced by processes unrelated to sea level. For deep-sea temperature, only one continuous high-resolution (Mg/Ca-based) record exists, with related sea-level estimates, spanning the past 1.5 Myr. Here we present a novel sea-level reconstruction, with associated estimates of deep-sea temperature, which independently validates the previous 0-1.5 Myr reconstruction and extends it back to 5.3 Myr ago. We find that deep-sea temperature and sea level generally decreased through time, but distinctly out of synchrony, which is remarkable given the importance of ice-albedo feedbacks on the radiative forcing of climate. In particular, we observe a large temporal offset during the onset of Plio-Pleistocene ice ages, between a marked cooling step at 2.73 Myr ago and the first major glaciation at 2.15 Myr ago. Last, we tentatively infer that ice sheets may have grown largest during glacials with more modest reductions in deep-sea temperature.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Rohling, E J -- Foster, G L -- Grant, K M -- Marino, G -- Roberts, A P -- Tamisiea, M E -- Williams, F -- England -- Nature. 2014 Apr 24;508(7497):477-82. doi: 10.1038/nature13230. Epub 2014 Apr 16.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Research School of Earth Sciences, The Australian National University, Canberra 0200, Australia [2] Ocean and Earth Science, University of Southampton, National Oceanography Centre, Southampton SO14 3ZH, UK. ; Ocean and Earth Science, University of Southampton, National Oceanography Centre, Southampton SO14 3ZH, UK. ; Research School of Earth Sciences, The Australian National University, Canberra 0200, Australia. ; National Oceanography Centre, Joseph Proudman Building, Liverpool L3 5DA, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24739960" target="_blank"〉PubMed〈/a〉
    Keywords: Foraminifera ; History, Ancient ; Ice Cover ; Mediterranean Sea ; Oxygen Isotopes ; Reproducibility of Results ; Seawater/*analysis ; *Temperature ; Time Factors
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  • 30
    Publication Date: 2014-01-17
    Description: Forests are major components of the global carbon cycle, providing substantial feedback to atmospheric greenhouse gas concentrations. Our ability to understand and predict changes in the forest carbon cycle--particularly net primary productivity and carbon storage--increasingly relies on models that represent biological processes across several scales of biological organization, from tree leaves to forest stands. Yet, despite advances in our understanding of productivity at the scales of leaves and stands, no consensus exists about the nature of productivity at the scale of the individual tree, in part because we lack a broad empirical assessment of whether rates of absolute tree mass growth (and thus carbon accumulation) decrease, remain constant, or increase as trees increase in size and age. Here we present a global analysis of 403 tropical and temperate tree species, showing that for most species mass growth rate increases continuously with tree size. Thus, large, old trees do not act simply as senescent carbon reservoirs but actively fix large amounts of carbon compared to smaller trees; at the extreme, a single big tree can add the same amount of carbon to the forest within a year as is contained in an entire mid-sized tree. The apparent paradoxes of individual tree growth increasing with tree size despite declining leaf-level and stand-level productivity can be explained, respectively, by increases in a tree's total leaf area that outpace declines in productivity per unit of leaf area and, among other factors, age-related reductions in population density. Our results resolve conflicting assumptions about the nature of tree growth, inform efforts to undertand and model forest carbon dynamics, and have additional implications for theories of resource allocation and plant senescence.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Stephenson, N L -- Das, A J -- Condit, R -- Russo, S E -- Baker, P J -- Beckman, N G -- Coomes, D A -- Lines, E R -- Morris, W K -- Ruger, N -- Alvarez, E -- Blundo, C -- Bunyavejchewin, S -- Chuyong, G -- Davies, S J -- Duque, A -- Ewango, C N -- Flores, O -- Franklin, J F -- Grau, H R -- Hao, Z -- Harmon, M E -- Hubbell, S P -- Kenfack, D -- Lin, Y -- Makana, J-R -- Malizia, A -- Malizia, L R -- Pabst, R J -- Pongpattananurak, N -- Su, S-H -- Sun, I-F -- Tan, S -- Thomas, D -- van Mantgem, P J -- Wang, X -- Wiser, S K -- Zavala, M A -- England -- Nature. 2014 Mar 6;507(7490):90-3. doi: 10.1038/nature12914. Epub 2014 Jan 15.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉US Geological Survey, Western Ecological Research Center, Three Rivers, California 93271, USA. ; Smithsonian Tropical Research Institute, Apartado 0843-03092, Balboa, Republic of Panama. ; School of Biological Sciences, University of Nebraska, Lincoln, Nebraska 68588, USA. ; Department of Forest and Ecosystem Science, University of Melbourne, Victoria 3121, Australia. ; 1] School of Biological Sciences, University of Nebraska, Lincoln, Nebraska 68588, USA [2] Mathematical Biosciences Institute, Ohio State University, Columbus, Ohio 43210, USA (N.G.B.); German Centre for Integrative Biodiversity Research (iDiv), Halle-Jena-Leipzig, 04103 Leipzig, Germany (N.R.). ; Department of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, UK. ; Department of Geography, University College London, London WC1E 6BT, UK. ; School of Botany, University of Melbourne, Victoria 3010, Australia. ; 1] Smithsonian Tropical Research Institute, Apartado 0843-03092, Balboa, Republic of Panama [2] Spezielle Botanik und Funktionelle Biodiversitat, Universitat Leipzig, 04103 Leipzig, Germany [3] Mathematical Biosciences Institute, Ohio State University, Columbus, Ohio 43210, USA (N.G.B.); German Centre for Integrative Biodiversity Research (iDiv), Halle-Jena-Leipzig, 04103 Leipzig, Germany (N.R.). ; Jardin Botanico de Medellin, Calle 73, No. 51D-14, Medellin, Colombia. ; Instituto de Ecologia Regional, Universidad Nacional de Tucuman, 4107 Yerba Buena, Tucuman, Argentina. ; Research Office, Department of National Parks, Wildlife and Plant Conservation, Bangkok 10900, Thailand. ; Department of Botany and Plant Physiology, Buea, Southwest Province, Cameroon. ; Smithsonian Institution Global Earth Observatory-Center for Tropical Forest Science, Smithsonian Institution, PO Box 37012, Washington, DC 20013, USA. ; Universidad Nacional de Colombia, Departamento de Ciencias Forestales, Medellin, Colombia. ; Wildlife Conservation Society, Kinshasa/Gombe, Democratic Republic of the Congo. ; Unite Mixte de Recherche-Peuplements Vegetaux et Bioagresseurs en Milieu Tropical, Universite de la Reunion/CIRAD, 97410 Saint Pierre, France. ; School of Environmental and Forest Sciences, University of Washington, Seattle, Washington 98195, USA. ; State Key Laboratory of Forest and Soil Ecology, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang 110164, China. ; Department of Forest Ecosystems and Society, Oregon State University, Corvallis, Oregon 97331, USA. ; 1] Smithsonian Tropical Research Institute, Apartado 0843-03092, Balboa, Republic of Panama [2] Department of Ecology and Evolutionary Biology, University of California, Los Angeles, California 90095, USA. ; Department of Life Science, Tunghai University, Taichung City 40704, Taiwan. ; Facultad de Ciencias Agrarias, Universidad Nacional de Jujuy, 4600 San Salvador de Jujuy, Argentina. ; Faculty of Forestry, Kasetsart University, ChatuChak Bangkok 10900, Thailand. ; Taiwan Forestry Research Institute, Taipei 10066, Taiwan. ; Department of Natural Resources and Environmental Studies, National Dong Hwa University, Hualien 97401, Taiwan. ; Sarawak Forestry Department, Kuching, Sarawak 93660, Malaysia. ; Department of Botany and Plant Pathology, Oregon State University, Corvallis, Oregon 97331, USA. ; US Geological Survey, Western Ecological Research Center, Arcata, California 95521, USA. ; Landcare Research, PO Box 40, Lincoln 7640, New Zealand. ; Forest Ecology and Restoration Group, Department of Life Sciences, University of Alcala, Alcala de Henares, 28805 Madrid, Spain.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24429523" target="_blank"〉PubMed〈/a〉
    Keywords: Aging/metabolism ; Biomass ; *Body Size ; Carbon/*metabolism ; *Carbon Cycle ; Climate ; Geography ; Models, Biological ; Plant Leaves/growth & development/metabolism ; Sample Size ; Species Specificity ; Time Factors ; Trees/*anatomy & histology/classification/growth & development/*metabolism ; Tropical Climate
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  • 31
    Publication Date: 2014-07-18
    Description: Generating engraftable human haematopoietic cells from autologous tissues is a potential route to new therapies for blood diseases. However, directed differentiation of pluripotent stem cells yields haematopoietic cells that engraft poorly. Here, we have devised a method to phenocopy the vascular-niche microenvironment of haemogenic cells, thereby enabling reprogramming of human endothelial cells into engraftable haematopoietic cells without transition through a pluripotent intermediate. Highly purified non-haemogenic human umbilical vein endothelial cells or adult dermal microvascular endothelial cells were transduced with the transcription factors FOSB, GFI1, RUNX1 and SPI1 (hereafter referred to as FGRS), and then propagated on serum-free instructive vascular niche monolayers to induce outgrowth of haematopoietic colonies containing cells with functional and immunophenotypic features of multipotent progenitor cells (MPPs). These endothelial cells that have been reprogrammed into human MPPs (rEC-hMPPs) acquire colony-forming-cell potential and durably engraft into immune-deficient mice after primary and secondary transplantation, producing long-term rEC-hMPP-derived myeloid (granulocytic/monocytic, erythroid, megakaryocytic) and lymphoid (natural killer and B cell) progenies. Conditional expression of FGRS transgenes, combined with vascular induction, activates endogenous FGRS genes, endowing rEC-hMPPs with a transcriptional and functional profile similar to that of self-renewing MPPs. Our approach underscores the role of inductive cues from the vascular niche in coordinating and sustaining haematopoietic specification and may prove useful for engineering autologous haematopoietic grafts to treat inherited and acquired blood disorders.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4159670/" 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/PMC4159670/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Sandler, Vladislav M -- Lis, Raphael -- Liu, Ying -- Kedem, Alon -- James, Daylon -- Elemento, Olivier -- Butler, Jason M -- Scandura, Joseph M -- Rafii, Shahin -- CA159175/CA/NCI NIH HHS/ -- CA163167/CA/NCI NIH HHS/ -- HL055748/HL/NHLBI NIH HHS/ -- HL119872/HL/NHLBI NIH HHS/ -- R01 DK095039/DK/NIDDK NIH HHS/ -- R01 HL097797/HL/NHLBI NIH HHS/ -- R01 HL115128/HL/NHLBI NIH HHS/ -- R01 HL119872/HL/NHLBI NIH HHS/ -- R01DK095039/DK/NIDDK NIH HHS/ -- R01HL097797/HL/NHLBI NIH HHS/ -- R01HL119872/HL/NHLBI NIH HHS/ -- U01 HL099997/HL/NHLBI NIH HHS/ -- U01-HL099997/HL/NHLBI NIH HHS/ -- U54 CA163167/CA/NCI NIH HHS/ -- U54CA163167/CA/NCI NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2014 Jul 17;511(7509):312-8. doi: 10.1038/nature13547. Epub 2014 Jul 2.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Ansary Stem Cell Institute, Department of Genetic Medicine, and Howard Hughes Medical Institute, Weill Cornell Medical College, New York, New York 10065, USA. ; 1] Ansary Stem Cell Institute, Department of Genetic Medicine, and Howard Hughes Medical Institute, Weill Cornell Medical College, New York, New York 10065, USA [2] Ronald O. Perelman and Claudia Cohen Center for Reproductive Medicine, Weill Cornell Medical College, New York, New York 10065, USA. ; HRH Prince Alwaleed Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine, Weill Cornell Medical College, New York, New York 10065, USA. ; Department of Medicine, Hematology-Oncology, Weill Cornell Medical College and the New York Presbyterian Hospital, New York, New York 10065, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25030167" target="_blank"〉PubMed〈/a〉
    Keywords: Adult Stem Cells/cytology/metabolism/transplantation ; Animals ; Aorta ; Cell Lineage ; *Cellular Microenvironment ; *Cellular Reprogramming ; Endothelial Cells/*cytology/metabolism ; Female ; Gene Expression Regulation ; Gonads ; Hematopoiesis ; Hematopoietic Stem Cell Transplantation ; Hematopoietic Stem Cells/*cytology/metabolism ; Humans ; Lymphocytes/cytology ; Mesonephros ; Mice ; Multipotent Stem Cells/*cytology/metabolism/transplantation ; Myeloid Cells/cytology ; Pluripotent Stem Cells ; Time Factors ; Transcription Factors/genetics/metabolism ; Transgenes/genetics
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  • 32
    Publication Date: 2014-11-28
    Description: Evidence is mounting that the immense diversity of microorganisms and animals that live belowground contributes significantly to shaping aboveground biodiversity and the functioning of terrestrial ecosystems. Our understanding of how this belowground biodiversity is distributed, and how it regulates the structure and functioning of terrestrial ecosystems, is rapidly growing. Evidence also points to soil biodiversity as having a key role in determining the ecological and evolutionary responses of terrestrial ecosystems to current and future environmental change. Here we review recent progress and propose avenues for further research in this field.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Bardgett, Richard D -- van der Putten, Wim H -- England -- Nature. 2014 Nov 27;515(7528):505-11. doi: 10.1038/nature13855.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Faculty of Life Sciences, Michael Smith Building, The University of Manchester, Manchester M13 9PT, United Kingdom. ; 1] Department of Terrestrial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), PO Box 50, 6700 AB Wageningen, The Netherlands [2] Laboratory of Nematology, Wageningen University, PO Box 8123, 6700 ES Wageningen, The Netherlands.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25428498" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; *Biodiversity ; *Ecosystem ; Food Chain ; Introduced Species ; Population Dynamics ; Soil Microbiology ; Time Factors
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  • 33
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    Nature Publishing Group (NPG)
    Publication Date: 2014-04-18
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Trivedi, Bijal P -- England -- Nature. 2014 Apr 17;508(7496):S64-5. doi: 10.1038/508S64a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24740131" target="_blank"〉PubMed〈/a〉
    Keywords: Agouti-Related Protein/metabolism ; Animals ; Anorexia/drug therapy/metabolism ; Appetite/*physiology ; Arcuate Nucleus of Hypothalamus/physiology ; Calcitonin Gene-Related Peptide/metabolism ; Feeding Behavior/*physiology/psychology ; Humans ; Hunger/physiology ; Mice ; Neurons/metabolism ; Neuropeptide Y/metabolism ; Obesity/drug therapy/metabolism ; Paraventricular Hypothalamic Nucleus/physiology ; Prader-Willi Syndrome/metabolism/pathology ; Pro-Opiomelanocortin/metabolism ; Time Factors ; gamma-Aminobutyric Acid/metabolism
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  • 34
    Publication Date: 2014-01-07
    Description: There are no clinically relevant treatments available that improve function in the growing population of very preterm infants (less than 32 weeks' gestation) with neonatal brain injury. Diffuse white matter injury (DWMI) is a common finding in these children and results in chronic neurodevelopmental impairments. As shown recently, failure in oligodendrocyte progenitor cell maturation contributes to DWMI. We demonstrated previously that the epidermal growth factor receptor (EGFR) has an important role in oligodendrocyte development. Here we examine whether enhanced EGFR signalling stimulates the endogenous response of EGFR-expressing progenitor cells during a critical period after brain injury, and promotes cellular and behavioural recovery in the developing brain. Using an established mouse model of very preterm brain injury, we demonstrate that selective overexpression of human EGFR in oligodendrocyte lineage cells or the administration of intranasal heparin-binding EGF immediately after injury decreases oligodendroglia death, enhances generation of new oligodendrocytes from progenitor cells and promotes functional recovery. Furthermore, these interventions diminish ultrastructural abnormalities and alleviate behavioural deficits on white-matter-specific paradigms. Inhibition of EGFR signalling with a molecularly targeted agent used for cancer therapy demonstrates that EGFR activation is an important contributor to oligodendrocyte regeneration and functional recovery after DWMI. Thus, our study provides direct evidence that targeting EGFR in oligodendrocyte progenitor cells at a specific time after injury is clinically feasible and potentially applicable to the treatment of premature children with white matter injury.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4106485/" 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/PMC4106485/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Scafidi, Joseph -- Hammond, Timothy R -- Scafidi, Susanna -- Ritter, Jonathan -- Jablonska, Beata -- Roncal, Maria -- Szigeti-Buck, Klara -- Coman, Daniel -- Huang, Yuegao -- McCarter, Robert J Jr -- Hyder, Fahmeed -- Horvath, Tamas L -- Gallo, Vittorio -- DP1 OD006850/OD/NIH HHS/ -- K08 NS069815/NS/NINDS NIH HHS/ -- K08 NS073793/NS/NINDS NIH HHS/ -- K08NS069815/NS/NINDS NIH HHS/ -- K08NS073793/NS/NINDS NIH HHS/ -- K12NS052159/NS/NINDS NIH HHS/ -- P01 NS062686/NS/NINDS NIH HHS/ -- P30 HD040677/HD/NICHD NIH HHS/ -- P30 NS05219/NS/NINDS NIH HHS/ -- P30 NS052519/NS/NINDS NIH HHS/ -- P30HD040677/HD/NICHD NIH HHS/ -- R01 NS045702/NS/NINDS NIH HHS/ -- R01MH067528/MH/NIMH NIH HHS/ -- R01NS045702/NS/NINDS NIH HHS/ -- R01NS056427/NS/NINDS NIH HHS/ -- England -- Nature. 2014 Feb 13;506(7487):230-4. doi: 10.1038/nature12880. Epub 2013 Dec 25.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Center for Neuroscience Research, Children's National Medical Center, Washington DC 20010, USA [2] Department of Neurology, Children's National Medical Center, Washington DC 20010, USA. ; 1] Center for Neuroscience Research, Children's National Medical Center, Washington DC 20010, USA [2] Institute for Biomedical Sciences, The George Washington University, Washington DC 20052, USA. ; Department of Anesthesiology & Critical Care Medicine, Johns Hopkins University School of Medicine, Baltimore, Maryland 21287, USA. ; Center for Neuroscience Research, Children's National Medical Center, Washington DC 20010, USA. ; Department of Neurobiology, Yale University, New Haven, Connecticut 06520, USA. ; MRRC, Department of Diagnostic Radiology, Yale University, New Haven, Connecticut 06520, USA. ; Center for Translational Science, Children's National Medical Center, Washington DC 20010, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24390343" target="_blank"〉PubMed〈/a〉
    Keywords: Administration, Intranasal ; Animals ; Animals, Newborn ; Anoxia/genetics/metabolism/pathology/physiopathology ; Brain Injuries/*congenital/*drug therapy/pathology/prevention & control ; Cell Differentiation/drug effects ; Cell Division/drug effects ; Cell Lineage/drug effects ; Cell Survival/drug effects ; Demyelinating Diseases/congenital/metabolism/pathology/prevention & control ; Disease Models, Animal ; Epidermal Growth Factor/administration & dosage/*pharmacology/*therapeutic use ; Humans ; Infant, Premature, Diseases/drug therapy/metabolism/pathology ; Male ; Mice ; Molecular Targeted Therapy ; Oligodendroglia/cytology/*drug effects/metabolism/pathology ; Receptor, Epidermal Growth Factor/genetics/metabolism ; Regeneration/drug effects ; Signal Transduction/drug effects ; Stem Cells/cytology/drug effects/metabolism ; Time Factors
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  • 35
    Publication Date: 2014-04-25
    Description: Tropical forests are global epicentres of biodiversity and important modulators of climate change, and are mainly constrained by rainfall patterns. The severe short-term droughts that occurred recently in Amazonia have drawn attention to the vulnerability of tropical forests to climatic disturbances. The central African rainforests, the second-largest on Earth, have experienced a long-term drying trend whose impacts on vegetation dynamics remain mostly unknown because in situ observations are very limited. The Congolese forest, with its drier conditions and higher percentage of semi-evergreen trees, may be more tolerant to short-term rainfall reduction than are wetter tropical forests, but for a long-term drought there may be critical thresholds of water availability below which higher-biomass, closed-canopy forests transition to more open, lower-biomass forests. Here we present observational evidence for a widespread decline in forest greenness over the past decade based on analyses of satellite data (optical, thermal, microwave and gravity) from several independent sensors over the Congo basin. This decline in vegetation greenness, particularly in the northern Congolese forest, is generally consistent with decreases in rainfall, terrestrial water storage, water content in aboveground woody and leaf biomass, and the canopy backscatter anomaly caused by changes in structure and moisture in upper forest layers. It is also consistent with increases in photosynthetically active radiation and land surface temperature. These multiple lines of evidence indicate that this large-scale vegetation browning, or loss of photosynthetic capacity, may be partially attributable to the long-term drying trend. Our results suggest that a continued gradual decline of photosynthetic capacity and moisture content driven by the persistent drying trend could alter the composition and structure of the Congolese forest to favour the spread of drought-tolerant species.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Zhou, Liming -- Tian, Yuhong -- Myneni, Ranga B -- Ciais, Philippe -- Saatchi, Sassan -- Liu, Yi Y -- Piao, Shilong -- Chen, Haishan -- Vermote, Eric F -- Song, Conghe -- Hwang, Taehee -- England -- Nature. 2014 May 1;509(7498):86-90. doi: 10.1038/nature13265. Epub 2014 Apr 23.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Atmospheric and Environmental Sciences, University at Albany, State University of New York (SUNY), Albany, New York 12222, USA. ; I. M. Systems Group (IMSG), National Oceanic and Atmospheric Administration/National Environmental Satellite, Data, and Information Service/The Center for Satellite Applications and Research (NOAA/NESDIS/STAR), 5830 University Research Court, College Park, Maryland 20740, USA. ; Department of Earth and Environment, Boston University, Boston, Massachusetts 02215, USA. ; Laboratoire des Sciences du Climat et de l'Environnement (LSCE), CEA-CNRS-UVSQ, 91191 Gif sur Yvette Cedex, France. ; Jet Propulsion Laboratory, Pasadena, California 91109, USA. ; ARC Centre of Excellence for Climate Systems Science & Climate Change Research Centre, University of New South Wales, Sydney, New South Wales 2052, Australia. ; Department of Ecology, College of Urban and Environmental Sciences, Peking University, Beijing 100871, China. ; Key Laboratory of Meteorological Disaster, Ministry of Education, Nanjing University of Information Science and Technology, Nanjing 210044, China. ; NASA Goddard Space Flight Center, Code 619, Greenbelt, Maryland 20771, USA. ; 1] Department of Geography, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 29599, USA [2] School of Forestry and Landscape Architecture, Anhui Agricultural University, Hefei, Anhui 230036, China. ; Institute for the Environment, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 29599, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24759324" target="_blank"〉PubMed〈/a〉
    Keywords: Acclimatization ; Biodiversity ; Biomass ; Chlorophyll/analysis/metabolism ; Climate Change/*statistics & numerical data ; Congo ; Droughts/statistics & numerical data ; Photosynthesis ; Plant Leaves/*growth & development/metabolism ; *Rain ; Satellite Imagery ; Seasons ; Temperature ; Time Factors ; Trees/*growth & development/metabolism ; *Tropical Climate ; Water/analysis/metabolism ; Wood/growth & development/metabolism
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  • 36
    Publication Date: 2014-12-04
    Description: Photosynthesis converts light energy into biologically useful chemical energy vital to life on Earth. The initial reaction of photosynthesis takes place in photosystem II (PSII), a 700-kilodalton homodimeric membrane protein complex that catalyses photo-oxidation of water into dioxygen through an S-state cycle of the oxygen evolving complex (OEC). The structure of PSII has been solved by X-ray diffraction (XRD) at 1.9 angstrom resolution, which revealed that the OEC is a Mn4CaO5-cluster coordinated by a well defined protein environment. However, extended X-ray absorption fine structure (EXAFS) studies showed that the manganese cations in the OEC are easily reduced by X-ray irradiation, and slight differences were found in the Mn-Mn distances determined by XRD, EXAFS and theoretical studies. Here we report a 'radiation-damage-free' structure of PSII from Thermosynechococcus vulcanus in the S1 state at a resolution of 1.95 angstroms using femtosecond X-ray pulses of the SPring-8 angstrom compact free-electron laser (SACLA) and hundreds of large, highly isomorphous PSII crystals. Compared with the structure from XRD, the OEC in the X-ray free electron laser structure has Mn-Mn distances that are shorter by 0.1-0.2 angstroms. The valences of each manganese atom were tentatively assigned as Mn1D(III), Mn2C(IV), Mn3B(IV) and Mn4A(III), based on the average Mn-ligand distances and analysis of the Jahn-Teller axis on Mn(III). One of the oxo-bridged oxygens, O5, has significantly longer distances to Mn than do the other oxo-oxygen atoms, suggesting that O5 is a hydroxide ion instead of a normal oxygen dianion and therefore may serve as one of the substrate oxygen atoms. These findings provide a structural basis for the mechanism of oxygen evolution, and we expect that this structure will provide a blueprint for the design of artificial catalysts for water oxidation.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Suga, Michihiro -- Akita, Fusamichi -- Hirata, Kunio -- Ueno, Go -- Murakami, Hironori -- Nakajima, Yoshiki -- Shimizu, Tetsuya -- Yamashita, Keitaro -- Yamamoto, Masaki -- Ago, Hideo -- Shen, Jian-Ren -- England -- Nature. 2015 Jan 1;517(7532):99-103. doi: 10.1038/nature13991. Epub 2014 Nov 26.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Photosynthesis Research Center, Graduate School of Natural Science and Technology, Okayama University, 3-1-1 Tsushima Naka, Okayama 700-8530, Japan. ; 1] RIKEN SPring-8 Center, 1-1-1 Kouto Sayo, Hyogo 679-5148, Japan [2] Japan Science and Technology Agency (JST), Core Research for Evolutional Science and Technology (CREST), Kawaguchi, Saitama 332-0012, Japan. ; RIKEN SPring-8 Center, 1-1-1 Kouto Sayo, Hyogo 679-5148, Japan.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25470056" target="_blank"〉PubMed〈/a〉
    Keywords: Catalytic Domain ; Crystallization ; Cyanobacteria/*enzymology ; Electrons ; Lasers ; Manganese/chemistry ; Models, Molecular ; Oxygen/chemistry/metabolism ; Photosystem II Protein Complex/*chemistry/*radiation effects ; Synchrotrons ; Time Factors ; Water/chemistry/metabolism ; *X-Rays
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  • 37
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    Nature Publishing Group (NPG)
    Publication Date: 2014-08-29
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Padma, T V -- England -- Nature. 2014 Aug 28;512(7515):359. doi: 10.1038/512359a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25164731" target="_blank"〉PubMed〈/a〉
    Keywords: *Altitude ; Animals ; *Biodiversity ; Fruit/anatomy & histology/physiology ; *Global Warming ; India ; Pinus/growth & development ; Plants/*classification ; *Temperature ; Time Factors
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  • 38
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    Nature Publishing Group (NPG)
    Publication Date: 2014-10-31
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2014 Oct 30;514(7524):535-6. doi: 10.1038/514535b.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25355322" target="_blank"〉PubMed〈/a〉
    Keywords: Africa/epidemiology ; Animals ; Biomedical Research/*trends ; Chiroptera/virology ; Developed Countries ; Disease Outbreaks/prevention & control/statistics & numerical data/veterinary ; Disease Reservoirs/veterinary/virology ; *Ebola Vaccines/supply & distribution ; Filoviridae/isolation & purification/pathogenicity/physiology ; Hemorrhagic Fever, Ebola/epidemiology/prevention & control/*therapy/*virology ; Humans ; Laboratories/supply & distribution ; Swine/virology ; Time Factors
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  • 39
    Publication Date: 2014-11-20
    Description: Oxidative stress promotes genomic instability and human diseases. A common oxidized nucleoside is 8-oxo-7,8-dihydro-2'-deoxyguanosine, which is found both in DNA (8-oxo-G) and as a free nucleotide (8-oxo-dGTP). Nucleotide pools are especially vulnerable to oxidative damage. Therefore cells encode an enzyme (MutT/MTH1) that removes free oxidized nucleotides. This cleansing function is required for cancer cell survival and to modulate Escherichia coli antibiotic sensitivity in a DNA polymerase (pol)-dependent manner. How polymerases discriminate between damaged and non-damaged nucleotides is not well understood. This analysis is essential given the role of oxidized nucleotides in mutagenesis, cancer therapeutics, and bacterial antibiotics. Even with cellular sanitizing activities, nucleotide pools contain enough 8-oxo-dGTP to promote mutagenesis. This arises from the dual coding potential where 8-oxo-dGTP(anti) base pairs with cytosine and 8-oxo-dGTP(syn) uses its Hoogsteen edge to base pair with adenine. Here we use time-lapse crystallography to follow 8-oxo-dGTP insertion opposite adenine or cytosine with human pol beta, to reveal that insertion is accommodated in either the syn- or anti-conformation, respectively. For 8-oxo-dGTP(anti) insertion, a novel divalent metal relieves repulsive interactions between the adducted guanine base and the triphosphate of the oxidized nucleotide. With either templating base, hydrogen-bonding interactions between the bases are lost as the enzyme reopens after catalysis, leading to a cytotoxic nicked DNA repair intermediate. Combining structural snapshots with kinetic and computational analysis reveals how 8-oxo-dGTP uses charge modulation during insertion that can lead to a blocked DNA repair intermediate.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4312183/" 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/PMC4312183/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Freudenthal, Bret D -- Beard, William A -- Perera, Lalith -- Shock, David D -- Kim, Taejin -- Schlick, Tamar -- Wilson, Samuel H -- 1U19CA105010/CA/NCI NIH HHS/ -- U19 CA177547/CA/NCI NIH HHS/ -- Z01-ES050158/ES/NIEHS NIH HHS/ -- Z01-ES050161/ES/NIEHS NIH HHS/ -- ZIA ES050158-18/Intramural NIH HHS/ -- ZIA ES050159-18/Intramural NIH HHS/ -- ZIC-ES043010/ES/NIEHS NIH HHS/ -- England -- Nature. 2015 Jan 29;517(7536):635-9. doi: 10.1038/nature13886. Epub 2014 Nov 17.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Laboratory of Structural Biology, National Institute of Environmental Health Sciences, National Institutes of Health, PO Box 12233, Research Triangle Park, North Carolina 27709-2233, USA. ; 1] Department of Chemistry, New York University, and NYU-ECNU Center for Computational Chemistry at NYU Shanghai, 10th Floor Silver Center, 100 Washington Square East, New York, New York 10003, USA [2] Courant Institute of Mathematical Sciences, New York University, 251 Mercer Street, New York, New York 10012, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25409153" target="_blank"〉PubMed〈/a〉
    Keywords: Adenine/chemistry/metabolism ; Base Pairing ; Catalytic Domain ; Crystallography, X-Ray ; Cytosine/chemistry/metabolism ; Cytotoxins/chemistry/*metabolism/toxicity ; DNA/biosynthesis/chemistry ; *DNA Damage ; DNA Polymerase beta/*chemistry/*metabolism ; DNA Repair ; DNA Replication ; Deoxyguanine Nucleotides/chemistry/*metabolism/*toxicity ; Guanine/analogs & derivatives/chemistry/metabolism ; Humans ; Hydrogen Bonding ; Kinetics ; Models, Molecular ; Molecular Conformation ; *Mutagenesis ; Neoplasms/enzymology/genetics ; Oxidation-Reduction ; Oxidative Stress ; Static Electricity ; Substrate Specificity ; Time Factors
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  • 40
    Publication Date: 2014-03-05
    Description: Filoviruses are emerging pathogens and causative agents of viral haemorrhagic fever. Case fatality rates of filovirus disease outbreaks are among the highest reported for any human pathogen, exceeding 90% (ref. 1). Licensed therapeutic or vaccine products are not available to treat filovirus diseases. Candidate therapeutics previously shown to be efficacious in non-human primate disease models are based on virus-specific designs and have limited broad-spectrum antiviral potential. Here we show that BCX4430, a novel synthetic adenosine analogue, inhibits infection of distinct filoviruses in human cells. Biochemical, reporter-based and primer-extension assays indicate that BCX4430 inhibits viral RNA polymerase function, acting as a non-obligate RNA chain terminator. Post-exposure intramuscular administration of BCX4430 protects against Ebola virus and Marburg virus disease in rodent models. Most importantly, BCX4430 completely protects cynomolgus macaques from Marburg virus infection when administered as late as 48 hours after infection. In addition, BCX4430 exhibits broad-spectrum antiviral activity against numerous viruses, including bunyaviruses, arenaviruses, paramyxoviruses, coronaviruses and flaviviruses. This is the first report, to our knowledge, of non-human primate protection from filovirus disease by a synthetic drug-like small molecule. We provide additional pharmacological characterizations supporting the potential development of BCX4430 as a countermeasure against human filovirus diseases and other viral diseases representing major public health threats.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Warren, Travis K -- Wells, Jay -- Panchal, Rekha G -- Stuthman, Kelly S -- Garza, Nicole L -- Van Tongeren, Sean A -- Dong, Lian -- Retterer, Cary J -- Eaton, Brett P -- Pegoraro, Gianluca -- Honnold, Shelley -- Bantia, Shanta -- Kotian, Pravin -- Chen, Xilin -- Taubenheim, Brian R -- Welch, Lisa S -- Minning, Dena M -- Babu, Yarlagadda S -- Sheridan, William P -- Bavari, Sina -- HHSN272201100016I/PHS HHS/ -- HHSN272201100019I/PHS HHS/ -- HHSN27220110005I/PHS HHS/ -- England -- Nature. 2014 Apr 17;508(7496):402-5. doi: 10.1038/nature13027. Epub 2014 Mar 2.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Division of Molecular and Translational Sciences, Therapeutic Discovery Center, United States Army Medical Research Institute of Infectious Diseases (USAMRIID), Fort Detrick, Maryland 21702, USA. ; BioCryst Pharmaceuticals Inc., Durham, North Carolina 27703, USA. ; 1] BioCryst Pharmaceuticals Inc., Durham, North Carolina 27703, USA [2] Wilco Consulting, LLC, Durham, North Carolina 27712, USA. ; MedExpert Consulting, Inc., Indialantic, Florida 32903, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24590073" target="_blank"〉PubMed〈/a〉
    Keywords: Adenosine/*analogs & derivatives ; Administration, Oral ; Animals ; Antiviral Agents/administration & dosage/chemistry/pharmacokinetics/*pharmacology ; DNA-Directed RNA Polymerases/antagonists & inhibitors/metabolism ; Disease Models, Animal ; Ebolavirus/drug effects ; Filoviridae/*drug effects/enzymology ; Filoviridae Infections/*prevention & control/*virology ; Hemorrhagic Fever, Ebola/prevention & control/virology ; Humans ; Injections, Intramuscular ; Macaca fascicularis/virology ; Marburg Virus Disease/prevention & control/virology ; Marburgvirus/drug effects ; Purine Nucleosides/administration & ; dosage/chemistry/pharmacokinetics/*pharmacology ; RNA/biosynthesis ; Time Factors
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  • 41
    Publication Date: 2014-03-29
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉DiNezio, Pedro -- England -- Nature. 2014 Mar 27;507(7493):437-9. doi: 10.1038/507437a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Oceanography, School of Ocean and Earth Science and Technology, University of Hawaii, Honolulu, Hawaii 96822, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24670757" target="_blank"〉PubMed〈/a〉
    Keywords: Computer Simulation ; *El Nino-Southern Oscillation ; *Forecasting ; Nonlinear Dynamics ; Pacific Ocean ; Temperature ; Time Factors ; Tropical Climate ; *Uncertainty
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  • 42
    Publication Date: 2014-04-18
    Description: A primary goal of the Human Microbiome Project (HMP) was to provide a reference collection of 16S ribosomal RNA gene sequences collected from sites across the human body that would allow microbiologists to better associate changes in the microbiome with changes in health. The HMP Consortium has reported the structure and function of the human microbiome in 300 healthy adults at 18 body sites from a single time point. Using additional data collected over the course of 12-18 months, we used Dirichlet multinomial mixture models to partition the data into community types for each body site and made three important observations. First, there were strong associations between whether individuals had been breastfed as an infant, their gender, and their level of education with their community types at several body sites. Second, although the specific taxonomic compositions of the oral and gut microbiomes were different, the community types observed at these sites were predictive of each other. Finally, over the course of the sampling period, the community types from sites within the oral cavity were the least stable, whereas those in the vagina and gut were the most stable. Our results demonstrate that even with the considerable intra- and interpersonal variation in the human microbiome, this variation can be partitioned into community types that are predictive of each other and are probably the result of life-history characteristics. Understanding the diversity of community types and the mechanisms that result in an individual having a particular type or changing types, will allow us to use their community types to assess disease risk and to personalize therapies.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4139711/" 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/PMC4139711/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ding, Tao -- Schloss, Patrick D -- P30 DK034933/DK/NIDDK NIH HHS/ -- P30DK034933/DK/NIDDK NIH HHS/ -- R01 GM099514/GM/NIGMS NIH HHS/ -- R01 HG005975/HG/NHGRI NIH HHS/ -- R01GM099514/GM/NIGMS NIH HHS/ -- R01HG005975/HG/NHGRI NIH HHS/ -- England -- Nature. 2014 May 15;509(7500):357-60. doi: 10.1038/nature13178. Epub 2014 Apr 16.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Microbiology and Immunology, 1500 W. Medical Center, University of Michigan, Ann Arbor, Michigan 48109, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24739969" target="_blank"〉PubMed〈/a〉
    Keywords: Breast Feeding ; Disease Susceptibility ; Educational Status ; Feces/microbiology ; Female ; Gastrointestinal Tract/microbiology ; Health ; *Human Body ; Humans ; Life Style ; Male ; Metagenome/genetics ; *Microbiota/genetics ; Mouth/microbiology ; *Organ Specificity ; Precision Medicine ; RNA, Ribosomal, 16S/genetics ; Sex Characteristics ; Time Factors ; Vagina/microbiology
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  • 43
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    Nature Publishing Group (NPG)
    Publication Date: 2014-04-20
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2014 Apr 17;508(7496):287.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24745067" target="_blank"〉PubMed〈/a〉
    Keywords: *Democracy ; Embryonic Stem Cells ; *European Union ; Humans ; *Public Opinion ; Stem Cell Research/economics/*legislation & jurisprudence ; Time Factors
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  • 44
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    Nature Publishing Group (NPG)
    Publication Date: 2014-12-17
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Butler, Declan -- England -- Nature. 2014 Dec 11;516(7530):154-5. doi: 10.1038/516154a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25503213" target="_blank"〉PubMed〈/a〉
    Keywords: Africa, Western/epidemiology ; *Early Diagnosis ; Ebolavirus/genetics/*isolation & purification ; Hemorrhagic Fever, Ebola/*diagnosis/epidemiology/*prevention & ; control/transmission ; Humans ; Quarantine ; Reverse Transcriptase Polymerase Chain Reaction ; Time Factors ; World Health Organization
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  • 45
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    Nature Publishing Group (NPG)
    Publication Date: 2014-05-30
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Gravitz, Lauren -- England -- Nature. 2014 May 29;509(7502):S52-4. doi: 10.1038/509S52a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24870820" target="_blank"〉PubMed〈/a〉
    Keywords: Adult ; Aged ; Antineoplastic Combined Chemotherapy Protocols ; Benzamides/pharmacology/therapeutic use ; Biological Evolution ; Biopsy/methods ; DNA Mutational Analysis ; DNA, Neoplasm/blood/genetics ; Disease Progression ; Drug Delivery Systems ; Drug Resistance, Neoplasm ; Genes, Tumor Suppressor ; Genetics, Medical/trends ; Genomics/trends ; Humans ; Imatinib Mesylate ; Immunotherapy/*methods/trends ; Indoles/pharmacology/therapeutic use ; Leukemia, Myelogenous, Chronic, BCR-ABL Positive/diagnosis/drug therapy/genetics ; Middle Aged ; Nanoparticles/administration & dosage ; Neoplasms/diagnosis/*genetics/immunology/*therapy ; *Pharmacogenetics/trends ; Piperazines/pharmacology/therapeutic use ; Precision Medicine/*methods/*trends ; Proto-Oncogene Proteins B-raf/genetics ; Pyrimidines/pharmacology/therapeutic use ; RNA Interference ; RNA, Small Interfering/genetics/therapeutic use ; Sulfonamides/pharmacology/therapeutic use ; Time Factors ; Transcriptome
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  • 46
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    Nature Publishing Group (NPG)
    Publication Date: 2014-11-20
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Werner, Michael J -- England -- Nature. 2014 Nov 20;515(7527):S126. doi: 10.1038/515S126a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Holland and Knight in Washington DC and a policy adviser for the Public Access to Sunscreens Coalition.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25407712" target="_blank"〉PubMed〈/a〉
    Keywords: Drug Approval/*legislation & jurisprudence/*methods ; European Union ; Humans ; Phenols/supply & distribution ; *Sunscreening Agents/supply & distribution ; Time Factors ; Triazines/supply & distribution ; Ultraviolet Rays/*adverse effects ; United States ; United States Food and Drug Administration/*legislation & jurisprudence
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  • 47
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    Nature Publishing Group (NPG)
    Publication Date: 2014-05-30
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kessler, Rebecca -- England -- Nature. 2014 May 29;509(7502):S62-3. doi: 10.1038/509S62a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24870824" target="_blank"〉PubMed〈/a〉
    Keywords: Air Pollution/adverse effects/analysis ; Carcinogens/analysis/*toxicity ; Child ; China ; Disease Susceptibility ; Endocrine Disruptors/adverse effects ; Environmental Exposure/*adverse effects/*prevention & control ; Environmental Pollution/*adverse effects/prevention & control/statistics & ; numerical data ; Epigenesis, Genetic/drug effects ; Female ; Humans ; Life Style ; Neoplasms/*chemically induced/genetics/*prevention & control ; Occupational Exposure/adverse effects/statistics & numerical data ; Particulate Matter/adverse effects ; Pregnancy ; Risk Reduction Behavior ; Tetrachloroethylene/adverse effects ; Time Factors ; United States ; United States Environmental Protection Agency ; World Health Organization
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  • 48
    Publication Date: 2014-01-07
    Description: Wnts are evolutionarily conserved secreted signalling proteins that, in various developmental contexts, spread from their site of synthesis to form a gradient and activate target-gene expression at a distance. However, the requirement for Wnts to spread has never been directly tested. Here we used genome engineering to replace the endogenous wingless gene, which encodes the main Drosophila Wnt, with one that expresses a membrane-tethered form of the protein. Surprisingly, the resulting flies were viable and produced normally patterned appendages of nearly the right size, albeit with a delay. We show that, in the prospective wing, prolonged wingless transcription followed by memory of earlier signalling allows persistent expression of relevant target genes. We suggest therefore that the spread of Wingless is dispensable for patterning and growth even though it probably contributes to increasing cell proliferation.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Alexandre, Cyrille -- Baena-Lopez, Alberto -- Vincent, Jean-Paul -- 082694/Z/07/Z/Wellcome Trust/United Kingdom -- U117584268/Medical Research Council/United Kingdom -- England -- Nature. 2014 Jan 9;505(7482):180-5. doi: 10.1038/nature12879. Epub 2013 Dec 25.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] MRC National Institute for Medical Research, The Ridgeway, Mill Hill, London NW7 1AA, UK [2]. ; MRC National Institute for Medical Research, The Ridgeway, Mill Hill, London NW7 1AA, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24390349" target="_blank"〉PubMed〈/a〉
    Keywords: Alleles ; Animals ; *Body Patterning/genetics ; Cell Membrane/*metabolism ; Cell Proliferation ; Chemokine CX3CL1/metabolism ; Diffusion ; Drosophila Proteins/deficiency/genetics/*metabolism ; Drosophila melanogaster/cytology/genetics/*growth & development/*metabolism ; Gene Expression Regulation, Developmental ; Mutation ; Organ Specificity ; Promoter Regions, Genetic/genetics ; Signal Transduction ; Time Factors ; Transcription, Genetic ; Wings, Animal/cytology/growth & development/metabolism ; Wnt1 Protein/deficiency/genetics/*metabolism
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  • 49
    Publication Date: 2014-02-14
    Description: It has been theorized for decades that mitochondria act as the biological clock of ageing, but the evidence is incomplete. Here we show a strong coupling between mitochondrial function and ageing by in vivo visualization of the mitochondrial flash (mitoflash), a frequency-coded optical readout reflecting free-radical production and energy metabolism at the single-mitochondrion level. Mitoflash activity in Caenorhabditis elegans pharyngeal muscles peaked on adult day 3 during active reproduction and on day 9 when animals started to die off. A plethora of genetic mutations and environmental factors inversely modified the lifespan and the day-3 mitoflash frequency. Even within an isogenic population, the day-3 mitoflash frequency was negatively correlated with the lifespan of individual animals. Furthermore, enhanced activity of the glyoxylate cycle contributed to the decreased day-3 mitoflash frequency and the longevity of daf-2 mutant animals. These results demonstrate that the day-3 mitoflash frequency is a powerful predictor of C. elegans lifespan across genetic, environmental and stochastic factors. They also support the notion that the rate of ageing, although adjustable in later life, has been set to a considerable degree before reproduction ceases.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Shen, En-Zhi -- Song, Chun-Qing -- Lin, Yuan -- Zhang, Wen-Hong -- Su, Pei-Fang -- Liu, Wen-Yuan -- Zhang, Pan -- Xu, Jiejia -- Lin, Na -- Zhan, Cheng -- Wang, Xianhua -- Shyr, Yu -- Cheng, Heping -- Dong, Meng-Qiu -- England -- Nature. 2014 Apr 3;508(7494):128-32. doi: 10.1038/nature13012. Epub 2014 Feb 12.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] College of Biological Sciences, China Agricultural University, Beijing 100094, China [2] National Institute of Biological Sciences, Beijing, Beijing 102206, China [3]. ; 1] State Key Laboratory of Biomembrane and Membrane Biotechnology, Beijing Key Laboratory of Cardiometabolic Molecular Medicine, Institute of Molecular Medicine, Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, China [2]. ; National Institute of Biological Sciences, Beijing, Beijing 102206, China. ; Department of Statistics, National Cheng Kung University, Tainan 70101, Taiwan. ; State Key Laboratory of Biomembrane and Membrane Biotechnology, Beijing Key Laboratory of Cardiometabolic Molecular Medicine, Institute of Molecular Medicine, Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, China. ; Vanderbilt Centre for Quantitative Sciences, Vanderbilt University, Nashville, Tennessee 37232, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24522532" target="_blank"〉PubMed〈/a〉
    Keywords: Aging/metabolism ; Animals ; Animals, Genetically Modified ; Caenorhabditis elegans/cytology/genetics/*metabolism/physiology ; Caenorhabditis elegans Proteins/genetics ; Death ; Energy Metabolism ; Environment ; Glyoxylates/metabolism ; Hermaphroditic Organisms ; *Longevity/genetics/physiology ; Male ; Mitochondria/*metabolism ; Models, Biological ; Muscles/cytology ; Mutation ; Oxidative Stress ; Receptor, Insulin/genetics ; Reproduction ; Stochastic Processes ; Superoxides/analysis/*metabolism ; Time Factors
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  • 50
    Publication Date: 2014-10-23
    Description: Morphogenesis is the process whereby cell collectives are shaped into differentiated tissues and organs. The self-organizing nature of morphogenesis has been recently demonstrated by studies showing that stem cells in three-dimensional culture can generate complex organoids, such as mini-guts, optic-cups and even mini-brains. To achieve this, cell collectives must regulate the activity of secreted signalling molecules that control cell differentiation, presumably through the self-assembly of microenvironments or niches. However, mechanisms that allow changes in tissue architecture to feedback directly on the activity of extracellular signals have not been described. Here we investigate how the process of tissue assembly controls signalling activity during organogenesis in vivo, using the migrating zebrafish lateral line primordium. We show that fibroblast growth factor (FGF) activity within the tissue controls the frequency at which it deposits rosette-like mechanosensory organs. Live imaging reveals that FGF becomes specifically concentrated in microluminal structures that assemble at the centre of these organs and spatially constrain its signalling activity. Genetic inhibition of microlumen assembly and laser micropuncture experiments demonstrate that microlumina increase signalling responses in participating cells, thus allowing FGF to coordinate the migratory behaviour of cell groups at the tissue rear. As the formation of a central lumen is a self-organizing property of many cell types, such as epithelia and embryonic stem cells, luminal signalling provides a potentially general mechanism to locally restrict, coordinate and enhance cell communication within tissues.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Durdu, Sevi -- Iskar, Murat -- Revenu, Celine -- Schieber, Nicole -- Kunze, Andreas -- Bork, Peer -- Schwab, Yannick -- Gilmour, Darren -- England -- Nature. 2014 Nov 6;515(7525):120-4. doi: 10.1038/nature13852. Epub 2014 Oct 22.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉European Molecular Biology Laboratory Heidelberg, Meyerhofstrasse 1, 69117 Heidelberg, Germany.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25337877" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; *Cell Communication ; Cell Differentiation ; Cell Movement ; Dose-Response Relationship, Drug ; Extracellular Space/metabolism ; Fibroblast Growth Factors/metabolism/secretion ; *Organogenesis ; *Signal Transduction ; Time Factors ; Zebrafish/*embryology/metabolism
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  • 51
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    Nature Publishing Group (NPG)
    Publication Date: 2014-06-26
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Yong, Ed -- England -- Nature. 2014 Jun 26;510(7506):S5. doi: 10.1038/510S5a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24964025" target="_blank"〉PubMed〈/a〉
    Keywords: Humans ; *Mobile Health Units/economics ; Paralysis/etiology/prevention & control ; Stroke/complications/*physiopathology/*therapy ; Time Factors ; Tissue Plasminogen Activator/therapeutic use
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  • 52
    Publication Date: 2014-09-05
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Witze, Alexandra -- England -- Nature. 2014 Sep 4;513(7516):18. doi: 10.1038/513018a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25186881" target="_blank"〉PubMed〈/a〉
    Keywords: California ; *Disaster Planning/economics ; Disasters/prevention & control/*statistics & numerical data ; Earthquakes/mortality/*statistics & numerical data ; Forecasting/*methods ; Humans ; Oregon ; Time Factors ; Washington
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  • 53
    Publication Date: 2014-08-22
    Description: The timing of Neanderthal disappearance and the extent to which they overlapped with the earliest incoming anatomically modern humans (AMHs) in Eurasia are key questions in palaeoanthropology. Determining the spatiotemporal relationship between the two populations is crucial if we are to understand the processes, timing and reasons leading to the disappearance of Neanderthals and the likelihood of cultural and genetic exchange. Serious technical challenges, however, have hindered reliable dating of the period, as the radiocarbon method reaches its limit at approximately 50,000 years ago. Here we apply improved accelerator mass spectrometry (14)C techniques to construct robust chronologies from 40 key Mousterian and Neanderthal archaeological sites, ranging from Russia to Spain. Bayesian age modelling was used to generate probability distribution functions to determine the latest appearance date. We show that the Mousterian ended by 41,030-39,260 calibrated years bp (at 95.4% probability) across Europe. We also demonstrate that succeeding 'transitional' archaeological industries, one of which has been linked with Neanderthals (Chatelperronian), end at a similar time. Our data indicate that the disappearance of Neanderthals occurred at different times in different regions. Comparing the data with results obtained from the earliest dated AMH sites in Europe, associated with the Uluzzian technocomplex, allows us to quantify the temporal overlap between the two human groups. The results reveal a significant overlap of 2,600-5,400 years (at 95.4% probability). This has important implications for models seeking to explain the cultural, technological and biological elements involved in the replacement of Neanderthals by AMHs. A mosaic of populations in Europe during the Middle to Upper Palaeolithic transition suggests that there was ample time for the transmission of cultural and symbolic behaviours, as well as possible genetic exchanges, between the two groups.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Higham, Tom -- Douka, Katerina -- Wood, Rachel -- Ramsey, Christopher Bronk -- Brock, Fiona -- Basell, Laura -- Camps, Marta -- Arrizabalaga, Alvaro -- Baena, Javier -- Barroso-Ruiz, Cecillio -- Bergman, Christopher -- Boitard, Coralie -- Boscato, Paolo -- Caparros, Miguel -- Conard, Nicholas J -- Draily, Christelle -- Froment, Alain -- Galvan, Bertila -- Gambassini, Paolo -- Garcia-Moreno, Alejandro -- Grimaldi, Stefano -- Haesaerts, Paul -- Holt, Brigitte -- Iriarte-Chiapusso, Maria-Jose -- Jelinek, Arthur -- Jorda Pardo, Jesus F -- Maillo-Fernandez, Jose-Manuel -- Marom, Anat -- Maroto, Julia -- Menendez, Mario -- Metz, Laure -- Morin, Eugene -- Moroni, Adriana -- Negrino, Fabio -- Panagopoulou, Eleni -- Peresani, Marco -- Pirson, Stephane -- de la Rasilla, Marco -- Riel-Salvatore, Julien -- Ronchitelli, Annamaria -- Santamaria, David -- Semal, Patrick -- Slimak, Ludovic -- Soler, Joaquim -- Soler, Narcis -- Villaluenga, Aritza -- Pinhasi, Ron -- Jacobi, Roger -- England -- Nature. 2014 Aug 21;512(7514):306-9. doi: 10.1038/nature13621.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Oxford Radiocarbon Accelerator Unit, Research Laboratory for Archaeology &the History of Art, University of Oxford, Oxford OX1 3QY, UK. ; 1] Oxford Radiocarbon Accelerator Unit, Research Laboratory for Archaeology &the History of Art, University of Oxford, Oxford OX1 3QY, UK [2] Research School for Earth Sciences, Australian National University, Canberra 0200, Australia. ; School of Geography, Archaeology and Palaeoecology (GAP), Queen's University Belfast, Belfast BT7 1NN, UK. ; School of Languages, Literatures and Cultures, College Park, 4102 Jimenez Hall, University of Maryland, Maryland 20742-4821, USA. ; Research Team on Prehistory (IT-622-13), IKERBASQUE, University of the Basque Country (UPV-EHU), Tomas y Valiente Street, 01006 Vitoria-Gasteiz, Spain. ; Departimento Prehistoria y Arqueologia, Universidad Autonoma de Madrid, Campus Cantoblanco, 28049 Madrid, Spain. ; Fundacion Instituto de Investigacion de Prehistoria y Evolucion Humana, Plaza del Coso 1, 14900 Lucena, Cordoba, Spain. ; URS, 525 Vine Street, Suite 1800, Cincinnati, Ohio 45202, USA. ; 8 rue des Sapins, 67100 Strasbourg, France. ; Dipartimento di Scienze Fisiche, della Terra e dell'Ambiente, U.R. Preistoria e Antropologia, Universita degli Studi di Siena, Via Laterina 8, 53100 Siena, Italy. ; Departement de Prehistoire, Museum National d'Histoire Naturelle, 75013 Paris, France. ; 1] Abt. Altere Urgeschichte und Quartarokologie, Universitat Tubingen, Schloss Hohentubingen, 72070 Tubingen, Germany [2] Tubingen Senckenberg Center for Human Evolution and Paleoecology, Schloss Hohentubingen, 72070 Tubingen, Germany. ; Service public de Wallonie, DGO4, Service de l'Archeologie, rue des Martyrs, 22, B-6700 Arlon, Belgium. ; Laboratoire d'Eco-antropologie et Ethnobiologie, Musee de l'Homme, 17 place du Trocadero, 75116 Paris, France. ; Departamento de Prehistoria, Arqueologia, Antropologia e Historia Antigua, Universidad de La Laguna, Campus de Guajara, 38071 Tenerife, Spain. ; 1] Monrepos Archaeological Research Centre and Museum for Human Behavioural Evolution, Schloss Monrepos, D-56567 Neuwied, Germany [2] The Cantabria International Institute for Prehistoric Research (IIIPC), University of Cantabria, Avda. Los Castros, s/n. 39005 Santander, Spain. ; Laboratorio di Preistoria 'B. Bagolini', Dipartimento di Lettere e Filosofia, Universita degli Studi di Trento, via Tommaso Gar, 14 I-38122 Trento, Italy. ; Institut Royal des Sciences Naturelles de Belgique, rue Vautier 29, B-1000 Brussels, Belgium. ; Department of Anthropology, University of Massachusetts, 103 Machmer Hall, Amherst, Massachusetts 01003, USA. ; School of Anthropology, Emil W. Haury Building, University of Arizona, Tucson, Arizona 85721-0030, USA. ; Departamento de Prehistoria y Arqueologia, UNED. Paseo Senda del Rey 7, 20840, Madrid, Spain. ; 1] Oxford Radiocarbon Accelerator Unit, Research Laboratory for Archaeology &the History of Art, University of Oxford, Oxford OX1 3QY, UK [2] The Kimmel Center for Archaeological Science, Weizmann Institute of Science, Rehovot 76100, Israel. ; rea de Prehistoria, Universitat de Girona, pl. Ferrater Mora 1, 17071 Girona, Spain. ; CNRS, UMR 5608, TRACES, Toulouse Jean Jaures University, Maison de la Recherche, 5 Allees Antonio Machado, 31058 Toulouse, Cedex 9, France. ; Department of Anthropology, Trent University, Life and Health Sciences Building Block C, 2140 East Bank Drive, Peterborough, Ontario K9J 7B8, Canada. ; Dipartimento di Antichita, Filosofia e Storia, Universita di Genova, Via Balbi 2, Genova I-16126, Italy. ; Ephoreia of Paleoanthropology of Southern Greece, Ardittou 34B, Athens 11636, Greece. ; Universita di Ferrara, Dipartimento di Studi Umanistici, Sezione di Scienze Preistoriche e Antropologiche, Corso Ercole I d'Este 32, I-44100 Ferrara, Italy. ; Service public de Wallonie, DGO4, Direction de l'Archeologie, rue des Brigades d'Irlande, 1, B-5100 Jambes, Belgium. ; Departamento de Historia, Universidad de Oviedo, c/Teniente Alfonso Martinez, s/n, 33011 Oviedo, Spain. ; Departement d'Anthropologie, Universite de Montreal, C. P. 6128, Succursale Centre-ville, Montreal, Quebec H3T 1N8, Canada. ; Service of Scientific Heritage, Royal Belgian Institute of Natural Sciences, 1000 Brussels, Belgium. ; Monrepos Archaeological Research Centre and Museum for Human Behavioural Evolution, Schloss Monrepos, D-56567 Neuwied, Germany. ; UCD Earth Institute and School of Archaeology, University College Dublin, Belfield, Dublin 4, Ireland. ; 1] Department of Prehistory and Europe, Franks House, The British Museum, London N1 5QJ, UK [2] The Natural History Museum, Cromwell Road, London SW7 5BD, UK [3].〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25143113" target="_blank"〉PubMed〈/a〉
    Keywords: Acculturation/*history ; Animals ; Bayes Theorem ; *Extinction, Biological ; *Geography ; History, Ancient ; Humans ; Mass Spectrometry ; *Neanderthals/genetics/physiology ; Radiometric Dating ; *Spatio-Temporal Analysis ; Time Factors ; Tool Use Behavior ; Uncertainty
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  • 54
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    Nature Publishing Group (NPG)
    Publication Date: 2014-04-11
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Fortunato, Santo -- England -- Nature. 2014 Apr 10;508(7495):186. doi: 10.1038/508186a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Aalto University, Finland.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24717507" target="_blank"〉PubMed〈/a〉
    Keywords: Age Factors ; Life Expectancy ; *Nobel Prize ; *Research Personnel ; Time Factors
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  • 55
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    Nature Publishing Group (NPG)
    Publication Date: 2014-04-04
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Anthes, Emily -- England -- Nature. 2014 Apr 3;508(7494):S16-7. doi: 10.1038/508S16a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24695330" target="_blank"〉PubMed〈/a〉
    Keywords: Adult ; Aged ; Aging, Premature/*complications/etiology/pathology/*physiopathology ; Antipsychotic Agents/adverse effects ; Brain/pathology/physiopathology ; Cardiovascular Diseases/complications ; Confounding Factors (Epidemiology) ; Diabetes Mellitus, Type 2/complications ; Glucose Intolerance/complications ; Health Surveys ; Humans ; Longevity/drug effects ; Middle Aged ; Models, Biological ; Schizophrenia/*complications/drug therapy/pathology/*physiopathology ; Telomere/metabolism ; Time Factors
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  • 56
    Publication Date: 2014-09-26
    Description: In eukaryotic cells, post-translational histone modifications have an important role in gene regulation. Starting with early work on histone acetylation, a variety of residue-specific modifications have now been linked to RNA polymerase II (RNAP2) activity, but it remains unclear if these markers are active regulators of transcription or just passive byproducts. This is because studies have traditionally relied on fixed cell populations, meaning temporal resolution is limited to minutes at best, and correlated factors may not actually be present in the same cell at the same time. Complementary approaches are therefore needed to probe the dynamic interplay of histone modifications and RNAP2 with higher temporal resolution in single living cells. Here we address this problem by developing a system to track residue-specific histone modifications and RNAP2 phosphorylation in living cells by fluorescence microscopy. This increases temporal resolution to the tens-of-seconds range. Our single-cell analysis reveals histone H3 lysine-27 acetylation at a gene locus can alter downstream transcription kinetics by as much as 50%, affecting two temporally separate events. First acetylation enhances the search kinetics of transcriptional activators, and later the acetylation accelerates the transition of RNAP2 from initiation to elongation. Signatures of the latter can be found genome-wide using chromatin immunoprecipitation followed by sequencing. We argue that this regulation leads to a robust and potentially tunable transcriptional response.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Stasevich, Timothy J -- Hayashi-Takanaka, Yoko -- Sato, Yuko -- Maehara, Kazumitsu -- Ohkawa, Yasuyuki -- Sakata-Sogawa, Kumiko -- Tokunaga, Makio -- Nagase, Takahiro -- Nozaki, Naohito -- McNally, James G -- Kimura, Hiroshi -- Howard Hughes Medical Institute/ -- England -- Nature. 2014 Dec 11;516(7530):272-5. doi: 10.1038/nature13714. Epub 2014 Sep 21.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Graduate School of Frontier Biosciences, Osaka University, Osaka, 565-0871, Japan [2] Department of Biochemistry and Molecular Biology, Colorado State University, Fort Collins, Colorado 80523-1870, USA [3] Transcription Imaging Consortium, Janelia Farm Research Campus, Howard Hughes Medical Institute, Ashburn, Virginia 20147, USA. ; 1] Graduate School of Frontier Biosciences, Osaka University, Osaka, 565-0871, Japan [2] Japan Science and Technology Agency (JST), Core Research for Evolutional Science and Technology (CREST), Kawaguchi, Saitama, 332-0012, Japan [3] Department of Biological Sciences, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, Yokohama, 226-8501, Japan. ; 1] Graduate School of Frontier Biosciences, Osaka University, Osaka, 565-0871, Japan [2] Department of Biological Sciences, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, Yokohama, 226-8501, Japan. ; Department of Advanced Medical Initiatives, Faculty of Medicine, Kyushu University, Fukuoka, 812-8582, Japan. ; 1] Japan Science and Technology Agency (JST), Core Research for Evolutional Science and Technology (CREST), Kawaguchi, Saitama, 332-0012, Japan [2] Department of Advanced Medical Initiatives, Faculty of Medicine, Kyushu University, Fukuoka, 812-8582, Japan. ; 1] Department of Biological Information, Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, Yokohama, 226-8501, Japan [2] RIKEN Center for Integrative Medical Sciences (IMS), Yokohama, 230-0045, Japan. ; Department of Biotechnology Research, Kazusa DNA Research Institute, Chiba, 292-0818, Japan. ; Mab Institute Inc., Sapporo, 001-0021, Japan. ; 1] Laboratory of Receptor Biology and Gene Expression, National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892, USA [2] Institute for Soft Matter and Functional Materials, Helmholtz Zentrum Berlin, Berlin, 14109, Germany.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25252976" target="_blank"〉PubMed〈/a〉
    Keywords: Acetylation ; Animals ; Cell Line, Tumor ; Cell Survival ; Chromatin Immunoprecipitation ; Enzyme Activation ; Genome/genetics ; Histones/*chemistry/*metabolism ; Kinetics ; Lysine/metabolism ; Mice ; Microscopy, Fluorescence ; Phosphorylation ; RNA Polymerase II/*metabolism ; *Single-Cell Analysis ; Time Factors ; Transcription Elongation, Genetic ; Transcription Initiation, Genetic ; *Transcription, Genetic
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  • 57
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    Nature Publishing Group (NPG)
    Publication Date: 2014-05-03
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Reardon, Sara -- England -- Nature. 2014 May 1;509(7498):22-4. doi: 10.1038/509022a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24784198" target="_blank"〉PubMed〈/a〉
    Keywords: Centers for Disease Control and Prevention (U.S.) ; DNA, Viral/analysis/isolation & purification ; *Disease Eradication/statistics & numerical data ; Evolution, Molecular ; Female ; History, 18th Century ; History, 19th Century ; History, 20th Century ; History, 21st Century ; History, Ancient ; Humans ; Male ; Mummies/*virology ; Smallpox/epidemiology/*history/transmission/*virology ; Smallpox Vaccine/history ; Time Factors ; United States ; Variola virus/genetics/*isolation & purification
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  • 58
    Publication Date: 2014-01-24
    Description: In recent decades, Antarctica has experienced pronounced climate changes. The Antarctic Peninsula exhibited the strongest warming of any region on the planet, causing rapid changes in land ice. Additionally, in contrast to the sea-ice decline over the Arctic, Antarctic sea ice has not declined, but has instead undergone a perplexing redistribution. Antarctic climate is influenced by, among other factors, changes in radiative forcing and remote Pacific climate variability, but none explains the observed Antarctic Peninsula warming or the sea-ice redistribution in austral winter. However, in the north and tropical Atlantic Ocean, the Atlantic Multidecadal Oscillation (a leading mode of sea surface temperature variability) has been overlooked in this context. Here we show that sea surface warming related to the Atlantic Multidecadal Oscillation reduces the surface pressure in the Amundsen Sea and contributes to the observed dipole-like sea-ice redistribution between the Ross and Amundsen-Bellingshausen-Weddell seas and to the Antarctic Peninsula warming. Support for these findings comes from analysis of observational and reanalysis data, and independently from both comprehensive and idealized atmospheric model simulations. We suggest that the north and tropical Atlantic is important for projections of future climate change in Antarctica, and has the potential to affect the global thermohaline circulation and sea-level change.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Li, Xichen -- Holland, David M -- Gerber, Edwin P -- Yoo, Changhyun -- England -- Nature. 2014 Jan 23;505(7484):538-42. doi: 10.1038/nature12945.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Courant Institute of Mathematical Sciences, New York University, 251 Mercer Street, New York, New York 10012, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24451542" target="_blank"〉PubMed〈/a〉
    Keywords: Antarctic Regions ; Atlantic Ocean ; Computer Simulation ; Global Warming ; *Ice Cover ; Models, Theoretical ; Pacific Ocean ; Pressure ; Seasons ; Seawater/*chemistry ; Temperature ; Time Factors ; *Tropical Climate
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  • 59
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    Nature Publishing Group (NPG)
    Publication Date: 2014-10-25
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Birkhead, Tim -- England -- Nature. 2014 Oct 23;514(7523):405. doi: 10.1038/514405a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉University of Sheffield, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25341754" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Charadriiformes/*physiology ; Climate Change ; Conservation of Natural Resources/economics/trends ; Ecology/*economics/*trends ; Population Dynamics ; Research Support as Topic/*trends ; Time Factors
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  • 60
    Publication Date: 2014-01-10
    Description: The emergence of jawed vertebrates (gnathostomes) from jawless vertebrates was accompanied by major morphological and physiological innovations, such as hinged jaws, paired fins and immunoglobulin-based adaptive immunity. Gnathostomes subsequently diverged into two groups, the cartilaginous fishes and the bony vertebrates. Here we report the whole-genome analysis of a cartilaginous fish, the elephant shark (Callorhinchus milii). We find that the C. milii genome is the slowest evolving of all known vertebrates, including the 'living fossil' coelacanth, and features extensive synteny conservation with tetrapod genomes, making it a good model for comparative analyses of gnathostome genomes. Our functional studies suggest that the lack of genes encoding secreted calcium-binding phosphoproteins in cartilaginous fishes explains the absence of bone in their endoskeleton. Furthermore, the adaptive immune system of cartilaginous fishes is unusual: it lacks the canonical CD4 co-receptor and most transcription factors, cytokines and cytokine receptors related to the CD4 lineage, despite the presence of polymorphic major histocompatibility complex class II molecules. It thus presents a new model for understanding the origin of adaptive immunity.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3964593/" 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/PMC3964593/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Venkatesh, Byrappa -- Lee, Alison P -- Ravi, Vydianathan -- Maurya, Ashish K -- Lian, Michelle M -- Swann, Jeremy B -- Ohta, Yuko -- Flajnik, Martin F -- Sutoh, Yoichi -- Kasahara, Masanori -- Hoon, Shawn -- Gangu, Vamshidhar -- Roy, Scott W -- Irimia, Manuel -- Korzh, Vladimir -- Kondrychyn, Igor -- Lim, Zhi Wei -- Tay, Boon-Hui -- Tohari, Sumanty -- Kong, Kiat Whye -- Ho, Shufen -- Lorente-Galdos, Belen -- Quilez, Javier -- Marques-Bonet, Tomas -- Raney, Brian J -- Ingham, Philip W -- Tay, Alice -- Hillier, LaDeana W -- Minx, Patrick -- Boehm, Thomas -- Wilson, Richard K -- Brenner, Sydney -- Warren, Wesley C -- AI27877/AI/NIAID NIH HHS/ -- R01 AI027877/AI/NIAID NIH HHS/ -- R01 OD010549/OD/NIH HHS/ -- RR006603/RR/NCRR NIH HHS/ -- U41 HG002371/HG/NHGRI NIH HHS/ -- U54 HG003079/HG/NHGRI NIH HHS/ -- England -- Nature. 2014 Jan 9;505(7482):174-9. doi: 10.1038/nature12826.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Comparative Genomics Laboratory, Institute of Molecular and Cell Biology, A*STAR, Biopolis, Singapore 138673 [2] Department of Paediatrics, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 119228. ; Comparative Genomics Laboratory, Institute of Molecular and Cell Biology, A*STAR, Biopolis, Singapore 138673. ; Developmental and Biomedical Genetics Laboratory, Institute of Molecular and Cell Biology, A*STAR, Biopolis, Singapore 138673. ; Department of Developmental Immunology, Max-Planck-Institute of Immunobiology and Epigenetics, Stuebeweg 51, 79108 Freiburg, Germany. ; Department of Microbiology and Immunology, University of Maryland, Baltimore, Maryland 21201, USA. ; Department of Pathology, Hokkaido University Graduate School of Medicine, Sapporo 060-8638, Japan. ; Molecular Engineering Laboratory, Biomedical Sciences Institutes, A*STAR, Biopolis, Singapore 138673. ; Department of Biology, San Francisco State University, San Francisco, California 94132, USA. ; Banting and Best Department of Medical Research and Donnelly Centre, University of Toronto, Toronto, Ontario M5S 3E1, Canada. ; Fish Developmental Biology Laboratory, Institute of Molecular and Cell Biology, A*STAR, Biopolis, Singapore 138673. ; 1] Institut de Biologia Evolutiva (UPF-CSIC), PRBB, 08003 Barcelona, Spain [2] Institucio Catalana de Recerca i Estudis Avancats (ICREA), 08010 Barcelona, Catalonia, Spain. ; Center for Biomolecular Science and Engineering, School of Engineering, University of California Santa Cruz, Santa Cruz, California 95064, USA. ; The Genome Institute at Washington University, St Louis, Missouri 63108, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24402279" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Calcium/metabolism ; Cell Lineage/immunology ; *Evolution, Molecular ; Fish Proteins/classification/genetics ; Gene Deletion ; Genome/*genetics ; Genomics ; Immunity, Cellular/genetics ; Molecular Sequence Annotation ; Molecular Sequence Data ; Osteogenesis/genetics ; Phosphoproteins/genetics/metabolism ; Phylogeny ; Protein Structure, Tertiary/genetics ; Sharks/*genetics/immunology ; T-Lymphocytes/cytology/immunology ; Time Factors ; Vertebrates/classification/genetics ; Zebrafish/genetics/growth & development
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  • 61
    Publication Date: 2014-07-22
    Description: The great therapeutic achievements of antibiotics have been dramatically undercut by the evolution of bacterial strategies that overcome antibiotic stress. These strategies fall into two classes. 'Resistance' makes it possible for a microorganism to grow in the constant presence of the antibiotic, provided that the concentration of the antibiotic is not too high. 'Tolerance' allows a microorganism to survive antibiotic treatment, even at high antibiotic concentrations, as long as the duration of the treatment is limited. Although both resistance and tolerance are important reasons for the failure of antibiotic treatments, the evolution of resistance is much better understood than that of tolerance. Here we followed the evolution of bacterial populations under intermittent exposure to the high concentrations of antibiotics used in the clinic and characterized the evolved strains in terms of both resistance and tolerance. We found that all strains adapted by specific genetic mutations, which became fixed in the evolved populations. By monitoring the phenotypic changes at the population and single-cell levels, we found that the first adaptive change to antibiotic stress was the development of tolerance through a major adjustment in the single-cell lag-time distribution, without a change in resistance. Strikingly, we found that the lag time of bacteria before regrowth was optimized to match the duration of the antibiotic-exposure interval. Whole genome sequencing of the evolved strains and restoration of the wild-type alleles allowed us to identify target genes involved in this antibiotic-driven phenotype: 'tolerance by lag' (tbl). Better understanding of lag-time evolution as a key determinant of the survival of bacterial populations under high antibiotic concentrations could lead to new approaches to impeding the evolution of antibiotic resistance.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Fridman, Ofer -- Goldberg, Amir -- Ronin, Irine -- Shoresh, Noam -- Balaban, Nathalie Q -- England -- Nature. 2014 Sep 18;513(7518):418-21. doi: 10.1038/nature13469. Epub 2014 Jun 25.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Racah Institute of Physics, The Sudarsky Center for Computational Biology and the Center for NanoScience, Edmond J. Safra Campus, The Hebrew University, Jerusalem 91904, Israel. ; Broad Institute of Harvard and MIT, Cambridge, Massachusetts 02142, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25043002" target="_blank"〉PubMed〈/a〉
    Keywords: Alleles ; Ampicillin/*pharmacology ; Anti-Bacterial Agents/*pharmacology ; Drug Resistance, Bacterial/drug effects ; *Drug Tolerance ; Escherichia coli/cytology/*drug effects/growth & development ; Phenotype ; Time Factors
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  • 62
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    Nature Publishing Group (NPG)
    Publication Date: 2014-03-07
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Cyranoski, David -- England -- Nature. 2014 Mar 6;507(7490):16-7. doi: 10.1038/507016a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24598617" target="_blank"〉PubMed〈/a〉
    Keywords: *Fukushima Nuclear Accident ; Japan ; Nuclear Energy/economics/*statistics & numerical data ; Radioactive Hazard Release/*prevention & control ; Renewable Energy/economics/*statistics & numerical data ; Time Factors
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  • 63
    Publication Date: 2014-02-28
    Description: The seasonal human influenza A/H3N2 virus undergoes rapid evolution, which produces significant year-to-year sequence turnover in the population of circulating strains. Adaptive mutations respond to human immune challenge and occur primarily in antigenic epitopes, the antibody-binding domains of the viral surface protein haemagglutinin. Here we develop a fitness model for haemagglutinin that predicts the evolution of the viral population from one year to the next. Two factors are shown to determine the fitness of a strain: adaptive epitope changes and deleterious mutations outside the epitopes. We infer both fitness components for the strains circulating in a given year, using population-genetic data of all previous strains. From fitness and frequency of each strain, we predict the frequency of its descendent strains in the following year. This fitness model maps the adaptive history of influenza A and suggests a principled method for vaccine selection. Our results call for a more comprehensive epidemiology of influenza and other fast-evolving pathogens that integrates antigenic phenotypes with other viral functions coupled by genetic linkage.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Luksza, Marta -- Lassig, Michael -- England -- Nature. 2014 Mar 6;507(7490):57-61. doi: 10.1038/nature13087. Epub 2014 Feb 26.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Institute for Theoretical Physics, University of Cologne, Zulpicher Strasse 77, 50937 Koln, Germany [2] Biological Sciences, Columbia University, 607D Fairchild Center, New York, New York 10027, USA. ; Institute for Theoretical Physics, University of Cologne, Zulpicher Strasse 77, 50937 Koln, Germany.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24572367" target="_blank"〉PubMed〈/a〉
    Keywords: Computer Simulation ; Epitopes/genetics/immunology ; *Evolution, Molecular ; Genes, Viral/genetics ; Genetic Fitness/genetics/immunology/physiology ; Genetics, Population ; Hemagglutinin Glycoproteins, Influenza Virus/chemistry/*genetics/*immunology ; Humans ; Influenza A Virus, H3N2 Subtype/chemistry/classification/*genetics/immunology ; Influenza Vaccines/chemistry/genetics/*immunology ; Influenza, Human/epidemiology/immunology/*virology ; Models, Immunological ; Mutation/genetics ; Time Factors
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  • 64
    Publication Date: 2014-10-16
    Description: In experimental plant communities, relationships between biodiversity and ecosystem functioning have been found to strengthen over time, a fact often attributed to increased resource complementarity between species in mixtures and negative plant-soil feedbacks in monocultures. Here we show that selection for niche differentiation between species can drive this increasing biodiversity effect. Growing 12 grassland species in test monocultures and mixtures, we found character displacement between species and increased biodiversity effects when plants had been selected over 8 years in species mixtures rather than in monocultures. When grown in mixtures, relative differences in height and specific leaf area between plant species selected in mixtures (mixture types) were greater than between species selected in monocultures (monoculture types). Furthermore, net biodiversity and complementarity effects were greater in mixtures of mixture types than in mixtures of monoculture types. Our study demonstrates a novel mechanism for the increase in biodiversity effects: selection for increased niche differentiation through character displacement. Selection in diverse mixtures may therefore increase species coexistence and ecosystem functioning in natural communities and may also allow increased mixture yields in agriculture or forestry. However, loss of biodiversity and prolonged selection of crops in monoculture may compromise this potential for selection in the longer term.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Zuppinger-Dingley, Debra -- Schmid, Bernhard -- Petermann, Jana S -- Yadav, Varuna -- De Deyn, Gerlinde B -- Flynn, Dan F B -- England -- Nature. 2014 Nov 6;515(7525):108-11. doi: 10.1038/nature13869. Epub 2014 Oct 15.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Institute of Evolutionary Biology and Environmental Studies &Zurich-Basel Plant Science Center, University of Zurich, Winterthurerstrasse 190, CH-8057 Zurich, Switzerland. ; 1] Institute of Biology, Freie Universitat Berlin, Konigin-Luise-Str. 1-3, 14195 Berlin, Germany [2] Berlin-Brandenburg Institute of Advanced Biodiversity Research (BBIB), 14195 Berlin, Germany. ; Environmental Sciences, University of Wageningen, Droevendaalsesteeg 4, 6708PB Wageningen, the Netherlands. ; 1] Institute of Evolutionary Biology and Environmental Studies &Zurich-Basel Plant Science Center, University of Zurich, Winterthurerstrasse 190, CH-8057 Zurich, Switzerland [2] Arnold Arboretum, Harvard University, Boston, Massachusetts 02131, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25317555" target="_blank"〉PubMed〈/a〉
    Keywords: *Adaptation, Biological ; Asteraceae/physiology ; *Biodiversity ; Biological Evolution ; Biomass ; Fabaceae/physiology ; *Plant Physiological Phenomena ; Poaceae/physiology ; Selection, Genetic ; Time Factors
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  • 65
    Publication Date: 2014-04-04
    Description: An interhemispheric hydrologic seesaw--in which latitudinal migrations of the Intertropical Convergence Zone (ITCZ) produce simultaneous wetting (increased precipitation) in one hemisphere and drying in the other--has been discovered in some tropical and subtropical regions. For instance, Chinese and Brazilian subtropical speleothem (cave formations such as stalactites and stalagmites) records show opposite trends in time series of oxygen isotopes (a proxy for precipitation variability) at millennial to orbital timescales, suggesting that hydrologic cycles were antiphased in the northerly versus southerly subtropics. This tropical to subtropical hydrologic phenomenon is likely to be an initial and important climatic response to orbital forcing. The impacts of such an interhemispheric hydrologic seesaw on higher-latitude regions and the global climate system, however, are unknown. Here we show that the antiphasing seen in the tropical records is also present in both hemispheres of the mid-latitude western Pacific Ocean. Our results are based on a new 550,000-year record of the growth frequency of speleothems from the Korean peninsula, which we compare to Southern Hemisphere equivalents. The Korean data are discontinuous and derived from 24 separate speleothems, but still allow the identification of periods of peak speleothem growth and, thus, precipitation. The clear hemispheric antiphasing indicates that the sphere of influence of the interhemispheric hydrologic seesaw over the past 550,000 years extended at least to the mid-latitudes, such as northeast Asia, and that orbital-timescale ITCZ shifts can have serious effects on temperate climate systems. Furthermore, our result implies that insolation-driven ITCZ dynamics may provoke water vapour and vegetation feedbacks in northern mid-latitude regions and could have regulated global climate conditions throughout the late Quaternary ice age cycles.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Jo, Kyoung-nam -- Woo, Kyung Sik -- Yi, Sangheon -- Yang, Dong Yoon -- Lim, Hyoun Soo -- Wang, Yongjin -- Cheng, Hai -- Edwards, R Lawrence -- England -- Nature. 2014 Apr 17;508(7496):378-82. doi: 10.1038/nature13076. Epub 2014 Mar 30.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Korea Institute of Geoscience and Mineral Resources, Daejeon 305-350, South Korea. ; Department of Geology, Kangwon National University, Gangwondo 200-701, South Korea. ; Department of Geological Sciences, Pusan National University, Busan 609-735, South Korea. ; College of Geography Science, Nanjing Normal University, Nanjing 210097, China. ; 1] Institute of Global Environmental Change, Xi'an Jiaotong University, Xi'an 710049, China [2] Department of Geology and Geophysics, University of Minnesota, Minneapolis, Minnesota 55455, USA. ; Department of Geology and Geophysics, University of Minnesota, Minneapolis, Minnesota 55455, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24695222" target="_blank"〉PubMed〈/a〉
    Keywords: *Climate ; History, Ancient ; *Hydrology ; Ice Cover ; Korea ; Pacific Ocean ; Rain ; Time Factors ; Tropical Climate
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  • 66
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    Publication Date: 2014-06-10
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2014 Jun 5;510(7503):7.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24910865" target="_blank"〉PubMed〈/a〉
    Keywords: Biotechnology/economics ; Diffusion of Innovation ; Drug Industry/economics ; *Federal Government ; Inventions/*economics/*legislation & jurisprudence ; Patents as Topic/*ethics/*legislation & jurisprudence ; Proteomics/economics ; Research/economics ; Time Factors ; United States ; Universities/economics
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 67
    Publication Date: 2014-04-11
    Description: One promise of synthetic biology is the creation of genetic circuitry that enables the execution of logical programming in living cells. Such 'wet programming' is positioned to transform a wide and diverse swathe of biotechnology ranging from therapeutics and diagnostics to water treatment strategies. Although progress in the development of a library of genetic modules continues apace, a major challenge for their integration into larger circuits is the generation of sufficiently fast and precise communication between modules. An attractive approach is to integrate engineered circuits with host processes that facilitate robust cellular signalling. In this context, recent studies have demonstrated that bacterial protein degradation can trigger a precise response to stress by overloading a limited supply of intracellular proteases. Here we use protease competition to engineer rapid and tunable coupling of genetic circuits across multiple spatial and temporal scales. We characterize coupling delay times that are more than an order of magnitude faster than standard transcription-factor-based coupling methods (less than 1 min compared with approximately 20-40 min) and demonstrate tunability through manipulation of the linker between the protein and its degradation tag. We use this mechanism as a platform to couple genetic clocks at the intracellular and colony level, then synchronize the multi-colony dynamics to reduce variability in both clocks. We show how the coupled clock network can be used to encode independent environmental inputs into a single time series output, thus enabling frequency multiplexing (information transmitted on a common channel by distinct frequencies) in a genetic circuit context. Our results establish a general framework for the rapid and tunable coupling of genetic circuits through the use of native 'queueing' processes such as competitive protein degradation.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4142690/" 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/PMC4142690/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Prindle, Arthur -- Selimkhanov, Jangir -- Li, Howard -- Razinkov, Ivan -- Tsimring, Lev S -- Hasty, Jeff -- P50 GM085764/GM/NIGMS NIH HHS/ -- R01 GM069811/GM/NIGMS NIH HHS/ -- England -- Nature. 2014 Apr 17;508(7496):387-91. doi: 10.1038/nature13238. Epub 2014 Apr 9.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Department of Bioengineering, University of California, San Diego, La Jolla, California 92093, USA [2]. ; Department of Bioengineering, University of California, San Diego, La Jolla, California 92093, USA. ; BioCircuits Institute, University of California, San Diego, La Jolla, California 92093, USA. ; 1] Department of Bioengineering, University of California, San Diego, La Jolla, California 92093, USA [2] BioCircuits Institute, University of California, San Diego, La Jolla, California 92093, USA [3] Molecular Biology Section, Division of Biological Science, University of California, San Diego, La Jolla, California 92093, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24717442" target="_blank"〉PubMed〈/a〉
    Keywords: Bacterial Proteins/genetics/metabolism ; Biological Clocks/genetics ; *Gene Regulatory Networks ; Peptide Hydrolases/metabolism ; *Protein Biosynthesis ; *Proteolysis ; Signal Transduction ; Synthetic Biology ; Time Factors ; Transcription Factors/metabolism ; Transcription, Genetic
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  • 68
    Publication Date: 2014-10-16
    Description: The most important energy development of the past decade has been the wide deployment of hydraulic fracturing technologies that enable the production of previously uneconomic shale gas resources in North America. If these advanced gas production technologies were to be deployed globally, the energy market could see a large influx of economically competitive unconventional gas resources. The climate implications of such abundant natural gas have been hotly debated. Some researchers have observed that abundant natural gas substituting for coal could reduce carbon dioxide (CO2) emissions. Others have reported that the non-CO2 greenhouse gas emissions associated with shale gas production make its lifecycle emissions higher than those of coal. Assessment of the full impact of abundant gas on climate change requires an integrated approach to the global energy-economy-climate systems, but the literature has been limited in either its geographic scope or its coverage of greenhouse gases. Here we show that market-driven increases in global supplies of unconventional natural gas do not discernibly reduce the trajectory of greenhouse gas emissions or climate forcing. Our results, based on simulations from five state-of-the-art integrated assessment models of energy-economy-climate systems independently forced by an abundant gas scenario, project large additional natural gas consumption of up to +170 per cent by 2050. The impact on CO2 emissions, however, is found to be much smaller (from -2 per cent to +11 per cent), and a majority of the models reported a small increase in climate forcing (from -0.3 per cent to +7 per cent) associated with the increased use of abundant gas. Our results show that although market penetration of globally abundant gas may substantially change the future energy system, it is not necessarily an effective substitute for climate change mitigation policy.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉McJeon, Haewon -- Edmonds, Jae -- Bauer, Nico -- Clarke, Leon -- Fisher, Brian -- Flannery, Brian P -- Hilaire, Jerome -- Krey, Volker -- Marangoni, Giacomo -- Mi, Raymond -- Riahi, Keywan -- Rogner, Holger -- Tavoni, Massimo -- England -- Nature. 2014 Oct 23;514(7523):482-5. doi: 10.1038/nature13837. Epub 2014 Oct 15.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Pacific Northwest National Laboratory, JGCRI, 5825 University Research Court, Suite 3500, College Park, Maryland 20740, USA. ; Potsdam Institute for Climate Impact Research, PO Box 60 12 03, D-14412 Potsdam, Germany. ; BAEconomics, PO Box 5447, Kingston, Australian Capital Territory 2604, Australia. ; Resources for the Future, 1616 P Street Northwest, Washington, DC 20036, USA. ; International Institute for Applied Systems Analysis, Schlossplatz 1, A-2361 Laxenburg, Austria. ; Centro Euromediterraneo sui Cambiamenti Climatici and Politecnico di Milano, Via Lambruschini 4b, 20156 Milan, Italy.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25317557" target="_blank"〉PubMed〈/a〉
    Keywords: Carbon Dioxide/analysis ; Climate Change/*statistics & numerical data ; *Environmental Policy ; Greenhouse Effect/prevention & control/statistics & numerical data ; Models, Theoretical ; Natural Gas/economics/supply & distribution/*utilization ; Time Factors
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  • 69
    Publication Date: 2014-03-29
    Description: Many aspects of cellular physiology remain unstudied in somatic stem cells, for example, there are almost no data on protein synthesis in any somatic stem cell. Here we set out to compare protein synthesis in haematopoietic stem cells (HSCs) and restricted haematopoietic progenitors. We found that the amount of protein synthesized per hour in HSCs in vivo was lower than in most other haematopoietic cells, even if we controlled for differences in cell cycle status or forced HSCs to undergo self-renewing divisions. Reduced ribosome function in Rpl24(Bst/+) mice further reduced protein synthesis in HSCs and impaired HSC function. Pten deletion increased protein synthesis in HSCs but also reduced HSC function. Rpl24(Bst/+) cell-autonomously rescued the effects of Pten deletion in HSCs; blocking the increase in protein synthesis, restoring HSC function, and delaying leukaemogenesis. Pten deficiency thus depletes HSCs and promotes leukaemia partly by increasing protein synthesis. Either increased or decreased protein synthesis impairs HSC function.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4015626/" 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/PMC4015626/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Signer, Robert A J -- Magee, Jeffrey A -- Salic, Adrian -- Morrison, Sean J -- K12-HD068369/HD/NICHD NIH HHS/ -- MFE-106993/Canadian Institutes of Health Research/Canada -- R01 DK100848/DK/NIDDK NIH HHS/ -- R37 AG024945/AG/NIA NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2014 May 1;509(7498):49-54. doi: 10.1038/nature13035. Epub 2014 Mar 9.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Howard Hughes Medical Institute, Children's Research Institute, Department of Pediatrics, University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA. ; Department of Cell Biology, Harvard Medical School, Boston, Massachusetts 02115, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24670665" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Cell Proliferation ; Cell Transformation, Neoplastic/genetics/metabolism/pathology ; Female ; Flow Cytometry ; Genetic Complementation Test ; Hematopoietic Stem Cells/cytology/drug effects/*metabolism/pathology ; Homeostasis/drug effects/genetics ; Kinetics ; Leukemia/genetics/metabolism/pathology ; Male ; Mice ; Mutation/genetics ; PTEN Phosphohydrolase/deficiency/genetics ; Proteasome Endopeptidase Complex/drug effects/metabolism ; *Protein Biosynthesis/drug effects/genetics ; Puromycin/analogs & derivatives/metabolism ; Ribosomal Proteins/genetics/metabolism ; Ribosomes/genetics/metabolism ; Time Factors
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  • 70
    Publication Date: 2014-09-12
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kelly, J Daniel -- England -- Nature. 2014 Sep 11;513(7517):145. doi: 10.1038/513145a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25209763" target="_blank"〉PubMed〈/a〉
    Keywords: Africa, Western ; Diagnostic Equipment/standards ; Health Facilities/standards/supply & distribution ; Hemorrhagic Fever, Ebola/*diagnosis/therapy ; Humans ; Mobile Health Units ; Time Factors
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  • 71
    Publication Date: 2014-02-18
    Description: Studies of experimental grassland communities have demonstrated that plant diversity can stabilize productivity through species asynchrony, in which decreases in the biomass of some species are compensated for by increases in others. However, it remains unknown whether these findings are relevant to natural ecosystems, especially those for which species diversity is threatened by anthropogenic global change. Here we analyse diversity-stability relationships from 41 grasslands on five continents and examine how these relationships are affected by chronic fertilization, one of the strongest drivers of species loss globally. Unmanipulated communities with more species had greater species asynchrony, resulting in more stable biomass production, generalizing a result from biodiversity experiments to real-world grasslands. However, fertilization weakened the positive effect of diversity on stability. Contrary to expectations, this was not due to species loss after eutrophication but rather to an increase in the temporal variation of productivity in combination with a decrease in species asynchrony in diverse communities. Our results demonstrate separate and synergistic effects of diversity and eutrophication on stability, emphasizing the need to understand how drivers of global change interactively affect the reliable provisioning of ecosystem services in real-world systems.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hautier, Yann -- Seabloom, Eric W -- Borer, Elizabeth T -- Adler, Peter B -- Harpole, W Stanley -- Hillebrand, Helmut -- Lind, Eric M -- MacDougall, Andrew S -- Stevens, Carly J -- Bakker, Jonathan D -- Buckley, Yvonne M -- Chu, Chengjin -- Collins, Scott L -- Daleo, Pedro -- Damschen, Ellen I -- Davies, Kendi F -- Fay, Philip A -- Firn, Jennifer -- Gruner, Daniel S -- Jin, Virginia L -- Klein, Julia A -- Knops, Johannes M H -- La Pierre, Kimberly J -- Li, Wei -- McCulley, Rebecca L -- Melbourne, Brett A -- Moore, Joslin L -- O'Halloran, Lydia R -- Prober, Suzanne M -- Risch, Anita C -- Sankaran, Mahesh -- Schuetz, Martin -- Hector, Andy -- England -- Nature. 2014 Apr 24;508(7497):521-5. doi: 10.1038/nature13014. Epub 2014 Feb 16.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Department of Ecology, Evolution, and Behavior, University of Minnesota, St Paul, Minnesota 55108, USA [2] Institute of Evolutionary Biology and Environmental Studies, University of Zurich, 8057 Zurich, Switzerland. ; Department of Ecology, Evolution, and Behavior, University of Minnesota, St Paul, Minnesota 55108, USA. ; Department of Wildland Resources and the Ecology Center, Utah State University, Logan, Utah 84322, USA. ; Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, Iowa 50011, USA. ; Institute for Chemistry and Biology of the Marine Environment, Carl-von-Ossietzky University Oldenburg, D-26111 Oldenburg, Germany. ; Department of Integrative Biology, University of Guelph, Guelph, Ontario N1G 2W1, Canada. ; Lancaster Environment Centre, Lancaster University, Lancaster LA1 4YQ, UK. ; School of Environmental and Forest Sciences, University of Washington, Seattle, Washington 98195, USA. ; 1] Australian Research Council Centre of Excellence for Environmental Decisions, School of Biological Sciences, The University of Queensland, Queensland 4072, Australia [2] School of Natural Sciences, Department of Zoology, Trinity College Dublin, Dublin 2, Ireland. ; State Key Laboratory of Grassland and Agro-Ecosystems, Research Station of Alpine Meadow and Wetland Ecosystems, School of Life Sciences, Lanzhou University, Lanzhou 730000, China. ; Department of Biology, MSC03-2020, University of New Mexico, Albuquerque, New Mexico 87131, USA. ; Instituto de Investigaciones Marinas y Costeras (IIMyC) (CONICET-UNMdP), Mar del Plata 7600, Argentina. ; Department of Zoology, University of Wisconsin, Madison, Wisconsin 53706, USA. ; Department of Ecology and Evolutionary Biology, University of Colorado, Boulder, Colorado 80309, USA. ; United States Department of Agriculture Agricultural Research Service, Grassland Soil and Water Research Lab, Temple, Texas 76502, USA. ; Queensland University of Technology, School of Biological Sciences, Brisbane 4000, Australia. ; Department of Entomology, University of Maryland, College Park, Maryland 20742, USA. ; United States Department of Agriculture Agricultural Research Service, Agroecosystem Management Research Unit, Lincoln, Nebraska 68583, USA. ; Department of Forest, Rangeland and Watershed Stewardship, Colorado State University, Fort Collins, Colorado 80523, USA. ; School of Biological Sciences, University of Nebraska, Lincoln, Nebraska 68588, USA. ; Berkeley Initiative for Global Change Biology, University of California, Berkeley, California 94720, USA. ; Yunnan Academy of Biodiversity, Southwest Forestry University, Kunming 650224, China. ; Department of Plant and Soil Sciences, University of Kentucky, Lexington, Kentucky 40546, USA. ; 1] Australian Research Centre for Urban Ecology, Melbourne, c/o School of Botany, University of Melbourne, Victoria 3010, Australia [2] School of Biological Sciences, Monash University, Victoria 3800, Australia. ; Department of Zoology, Oregon State University, Corvallis, Oregon 97331, USA. ; CSIRO Ecosystem Sciences, Wembley, WA 6913, Australia. ; Swiss Federal Institute for Forest, Snow and Landscape Research, 8903 Birmensdorf, Switzerland. ; 1] School of Biology, University of Leeds, Leeds LS2 9JT, UK [2] National Centre for Biological Sciences, GKVK Campus, Bangalore 560065, India. ; Department of Plant Sciences, University of Oxford, Oxford OX1 3RB, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24531763" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; *Biodiversity ; Biomass ; Climate ; *Eutrophication/drug effects ; Fertilizers/*adverse effects ; Geography ; International Cooperation ; *Poaceae/drug effects/physiology ; Time Factors
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  • 72
    Publication Date: 2014-09-26
    Description: The response of the terrestrial carbon cycle to climate change is among the largest uncertainties affecting future climate change projections. The feedback between the terrestrial carbon cycle and climate is partly determined by changes in the turnover time of carbon in land ecosystems, which in turn is an ecosystem property that emerges from the interplay between climate, soil and vegetation type. Here we present a global, spatially explicit and observation-based assessment of whole-ecosystem carbon turnover times that combines new estimates of vegetation and soil organic carbon stocks and fluxes. We find that the overall mean global carbon turnover time is 23(+7)(-4) years (95 per cent confidence interval). On average, carbon resides in the vegetation and soil near the Equator for a shorter time than at latitudes north of 75 degrees north (mean turnover times of 15 and 255 years, respectively). We identify a clear dependence of the turnover time on temperature, as expected from our present understanding of temperature controls on ecosystem dynamics. Surprisingly, our analysis also reveals a similarly strong association between turnover time and precipitation. Moreover, we find that the ecosystem carbon turnover times simulated by state-of-the-art coupled climate/carbon-cycle models vary widely and that numerical simulations, on average, tend to underestimate the global carbon turnover time by 36 per cent. The models show stronger spatial relationships with temperature than do observation-based estimates, but generally do not reproduce the strong relationships with precipitation and predict faster carbon turnover in many semi-arid regions. Our findings suggest that future climate/carbon-cycle feedbacks may depend more strongly on changes in the hydrological cycle than is expected at present and is considered in Earth system models.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Carvalhais, Nuno -- Forkel, Matthias -- Khomik, Myroslava -- Bellarby, Jessica -- Jung, Martin -- Migliavacca, Mirco -- Mu, Mingquan -- Saatchi, Sassan -- Santoro, Maurizio -- Thurner, Martin -- Weber, Ulrich -- Ahrens, Bernhard -- Beer, Christian -- Cescatti, Alessandro -- Randerson, James T -- Reichstein, Markus -- England -- Nature. 2014 Oct 9;514(7521):213-7. doi: 10.1038/nature13731. Epub 2014 Sep 24.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Max Planck Institute for Biogeochemistry, Hans Knoll Strasse 10, 07745 Jena, Germany [2] Departamento de Ciencias e Engenharia do Ambiente, DCEA, Faculdade de Ciencias e Tecnologia, FCT, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal. ; Max Planck Institute for Biogeochemistry, Hans Knoll Strasse 10, 07745 Jena, Germany. ; 1] Max Planck Institute for Biogeochemistry, Hans Knoll Strasse 10, 07745 Jena, Germany [2] School of Geography and Earth Sciences, McMaster University, Hamilton, Ontario L8S 4K1, Canada. ; 1] Institute of Biological and Environmental Sciences, School of Biological Sciences, University of Aberdeen, Aberdeen AB24 3UU, UK [2] Lancaster Environment Centre, Lancaster University, Bailrigg, Lancaster LA1 4YQ, UK. ; 1] Max Planck Institute for Biogeochemistry, Hans Knoll Strasse 10, 07745 Jena, Germany [2] Remote Sensing of Environmental Dynamics Lab, DISAT, University of Milano-Bicocca, Piazza della Scienza 1, 20126 Milan, Italy. ; Department of Earth System Science, University of California Irvine, Irvine, California 92697, USA. ; Jet Propulsion Laboratory, California Institute of Technology, Pasadena, California 91109, USA. ; Gamma Remote Sensing, Worbstrasse 225, 3073 Gumligen, Switzerland. ; 1] Max Planck Institute for Biogeochemistry, Hans Knoll Strasse 10, 07745 Jena, Germany [2] Department of Applied Environmental Science and Bolin Centre for Climate Research, Stockholm University, Svante Arrhenius vag 8, 10691 Stockholm, Sweden. ; European Commission, Joint Research Centre, Institute for Environment and Sustainability, Climate Risk Management Unit, Via E. Fermi, 2749, I-21027 Ispra, Italy.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25252980" target="_blank"〉PubMed〈/a〉
    Keywords: Biomass ; Carbon/*metabolism ; *Carbon Cycle ; *Climate ; *Ecosystem ; Feedback ; Hydrology ; Models, Theoretical ; Plants/metabolism ; Rain ; Soil/chemistry ; Temperature ; Time Factors ; Water Cycle
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  • 73
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    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2014-03-13
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Stohr, Klaus -- England -- Nature. 2014 Mar 6;507(7490):S20-1.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24611175" target="_blank"〉PubMed〈/a〉
    Keywords: Developed Countries/economics/statistics & numerical data ; Developing Countries/economics/statistics & numerical data ; Humans ; Influenza Vaccines/*supply & distribution ; Influenza, Human/*epidemiology/*prevention & control/virology ; Pandemics/*prevention & control/statistics & numerical data ; Time Factors ; World Health Organization
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  • 74
    facet.materialart.
    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2014-03-08
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2014 Mar 6;507(7490):7.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24605371" target="_blank"〉PubMed〈/a〉
    Keywords: Confidentiality/ethics/legislation & jurisprudence ; Databases, Factual/ethics/*standards/trends ; Electronic Health Records/*standards ; European Union ; Great Britain ; Humans ; Informed Consent/ethics/legislation & jurisprudence/*standards ; *National Health Programs ; Time Factors ; Trust
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  • 75
    Publication Date: 2014-11-21
    Description: Eukaryotic chromosomes replicate in a temporal order known as the replication-timing program. In mammals, replication timing is cell-type-specific with at least half the genome switching replication timing during development, primarily in units of 400-800 kilobases ('replication domains'), whose positions are preserved in different cell types, conserved between species, and appear to confine long-range effects of chromosome rearrangements. Early and late replication correlate, respectively, with open and closed three-dimensional chromatin compartments identified by high-resolution chromosome conformation capture (Hi-C), and, to a lesser extent, late replication correlates with lamina-associated domains (LADs). Recent Hi-C mapping has unveiled substructure within chromatin compartments called topologically associating domains (TADs) that are largely conserved in their positions between cell types and are similar in size to replication domains. However, TADs can be further sub-stratified into smaller domains, challenging the significance of structures at any particular scale. Moreover, attempts to reconcile TADs and LADs to replication-timing data have not revealed a common, underlying domain structure. Here we localize boundaries of replication domains to the early-replicating border of replication-timing transitions and map their positions in 18 human and 13 mouse cell types. We demonstrate that, collectively, replication domain boundaries share a near one-to-one correlation with TAD boundaries, whereas within a cell type, adjacent TADs that replicate at similar times obscure replication domain boundaries, largely accounting for the previously reported lack of alignment. Moreover, cell-type-specific replication timing of TADs partitions the genome into two large-scale sub-nuclear compartments revealing that replication-timing transitions are indistinguishable from late-replicating regions in chromatin composition and lamina association and accounting for the reduced correlation of replication timing to LADs and heterochromatin. Our results reconcile cell-type-specific sub-nuclear compartmentalization and replication timing with developmentally stable structural domains and offer a unified model for large-scale chromosome structure and function.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4251741/" 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/PMC4251741/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Pope, Benjamin D -- Ryba, Tyrone -- Dileep, Vishnu -- Yue, Feng -- Wu, Weisheng -- Denas, Olgert -- Vera, Daniel L -- Wang, Yanli -- Hansen, R Scott -- Canfield, Theresa K -- Thurman, Robert E -- Cheng, Yong -- Gulsoy, Gunhan -- Dennis, Jonathan H -- Snyder, Michael P -- Stamatoyannopoulos, John A -- Taylor, James -- Hardison, Ross C -- Kahveci, Tamer -- Ren, Bing -- Gilbert, David M -- DK065806/DK/NIDDK NIH HHS/ -- F31 CA165863/CA/NCI NIH HHS/ -- F31CA165863/CA/NCI NIH HHS/ -- GM083337/GM/NIGMS NIH HHS/ -- GM085354/GM/NIGMS NIH HHS/ -- HG003991/HG/NHGRI NIH HHS/ -- HG005573/HG/NHGRI NIH HHS/ -- HG005602/HG/NHGRI NIH HHS/ -- P01 GM085354/GM/NIGMS NIH HHS/ -- R01 DA033775/DA/NIDA NIH HHS/ -- R01 DK065806/DK/NIDDK NIH HHS/ -- R01 GM083337/GM/NIGMS NIH HHS/ -- R56 DK065806/DK/NIDDK NIH HHS/ -- RC2 HG005573/HG/NHGRI NIH HHS/ -- U54 HG006997/HG/NHGRI NIH HHS/ -- England -- Nature. 2014 Nov 20;515(7527):402-5. doi: 10.1038/nature13986.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Biological Science, 319 Stadium Drive, Florida State University, Tallahassee, Florida 32306, USA. ; Division of Natural Sciences, 5800 Bay Shore Road, New College of Florida, Sarasota, Florida 34243, USA. ; 1] Department of Biochemistry and Molecular Biology, School of Medicine, The Pennsylvania State University, Hershey, Pennsylvania 17033, USA [2] Bioinformatics and Genomics Program, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, Pennsylvania 16802, USA. ; Center for Comparative Genomics and Bioinformatics, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, Pennsylvania 16802, USA. ; Departments of Biology and Mathematics and Computer Science, Emory University, O. Wayne Rollins Research Center, 1510 Clifton Road NE, Atlanta, Georgia 30322, USA. ; Bioinformatics and Genomics Program, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, Pennsylvania 16802, USA. ; Department of Medicine, Division of Medical Genetics, University of Washington, Seattle, Washington 98195, USA. ; Department of Genome Sciences, University of Washington, Seattle, Washington 98195, USA. ; Department of Genetics, Stanford University, 300 Pasteur Drive, MC-5477 Stanford, California 94305, USA. ; Computer and Information Sciences and Engineering, University of Florida, Gainesville, Florida 32611, USA. ; Ludwig Institute for Cancer Research and University of California, San Diego School of Medicine, 9500 Gilman Drive, La Jolla, California 92093, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25409831" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Cell Compartmentation ; Chromatin/*chemistry/*genetics/metabolism ; Chromatin Assembly and Disassembly ; DNA/*biosynthesis/genetics ; *DNA Replication Timing ; Genome/genetics ; Heterochromatin/chemistry/genetics/metabolism ; Humans ; Mice ; Organ Specificity ; Time Factors
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  • 76
    Publication Date: 2014-10-09
    Description: It is currently thought that life-long blood cell production is driven by the action of a small number of multipotent haematopoietic stem cells. Evidence supporting this view has been largely acquired through the use of functional assays involving transplantation. However, whether these mechanisms also govern native non-transplant haematopoiesis is entirely unclear. Here we have established a novel experimental model in mice where cells can be uniquely and genetically labelled in situ to address this question. Using this approach, we have performed longitudinal analyses of clonal dynamics in adult mice that reveal unprecedented features of native haematopoiesis. In contrast to what occurs following transplantation, steady-state blood production is maintained by the successive recruitment of thousands of clones, each with a minimal contribution to mature progeny. Our results demonstrate that a large number of long-lived progenitors, rather than classically defined haematopoietic stem cells, are the main drivers of steady-state haematopoiesis during most of adulthood. Our results also have implications for understanding the cellular origin of haematopoietic disease.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4408613/" 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/PMC4408613/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Sun, Jianlong -- Ramos, Azucena -- Chapman, Brad -- Johnnidis, Jonathan B -- Le, Linda -- Ho, Yu-Jui -- Klein, Allon -- Hofmann, Oliver -- Camargo, Fernando D -- DP2 OD006472/OD/NIH HHS/ -- DP2OD006472/OD/NIH HHS/ -- P30 DK049216/DK/NIDDK NIH HHS/ -- England -- Nature. 2014 Oct 16;514(7522):322-7. doi: 10.1038/nature13824. Epub 2014 Oct 5.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Stem Cell Program, Children's Hospital, Boston, Massachusetts 02115, USA [2] Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, Massachusetts 02138, USA [3] Harvard Stem Cell Institute, Cambridge, Massachusetts 02138, USA. ; Stem Cell Program, Children's Hospital, Boston, Massachusetts 02115, USA. ; Department of Biostatistics, Harvard School of Public Health, Boston, Massachusetts 02115, USA. ; Department of Immunology, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA. ; Watson School of Biological Sciences, Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724, USA. ; Department of Systems Biology, Harvard Medical School, Boston, Massachusetts 02115, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25296256" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Cell Aging ; *Cell Lineage ; Clone Cells/*cytology/metabolism ; DNA Transposable Elements/genetics ; Female ; Genetic Markers/genetics ; *Hematopoiesis ; Hematopoietic Stem Cell Transplantation ; Hematopoietic Stem Cells/cytology/metabolism ; Male ; Mice ; Myelopoiesis ; Staining and Labeling ; Time Factors
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  • 77
    Publication Date: 2014-04-25
    Description: Observations of a longer growing season through earlier plant growth in temperate to polar regions have been thought to be a response to climate warming. However, data from experimental warming studies indicate that many species that initiate leaf growth and flowering earlier also reach seed maturation and senesce earlier, shortening their active and reproductive periods. A conceptual model to explain this apparent contradiction, and an analysis of the effect of elevated CO2--which can delay annual life cycle events--on changing season length, have not been tested. Here we show that experimental warming in a temperate grassland led to a longer growing season through earlier leaf emergence by the first species to leaf, often a grass, and constant or delayed senescence by other species that were the last to senesce, supporting the conceptual model. Elevated CO2 further extended growing, but not reproductive, season length in the warmed grassland by conserving water, which enabled most species to remain active longer. Our results suggest that a longer growing season, especially in years or biomes where water is a limiting factor, is not due to warming alone, but also to higher atmospheric CO2 concentrations that extend the active period of plant annual life cycles.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Reyes-Fox, Melissa -- Steltzer, Heidi -- Trlica, M J -- McMaster, Gregory S -- Andales, Allan A -- LeCain, Dan R -- Morgan, Jack A -- England -- Nature. 2014 Jun 12;510(7504):259-62. doi: 10.1038/nature13207. Epub 2014 Apr 23.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] USDA-ARS, Soil Plant Nutrient Research Unit and Northern Plains Area, Fort Collins, Colorado 80526, USA [2]. ; 1] Department of Biology, Fort Lewis College, Durango, Colorado 81301, USA [2]. ; Department of Forest and Rangeland Stewardship, Colorado State University, Fort Collins, Colorado 80523, USA. ; USDA-ARS, Agricultural Systems Research Unit and Northern Plains Area, Fort Collins, Colorado 80526, USA. ; Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80523, USA. ; USDA-ARS, Rangeland Resources Research Unit, Fort Collins, Colorado 80526, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24759322" target="_blank"〉PubMed〈/a〉
    Keywords: Carbon Dioxide/*metabolism/pharmacology ; Climate ; *Ecosystem ; *Global Warming ; Poaceae/drug effects ; Reproduction ; *Seasons ; Soil/chemistry ; Time Factors ; Water/analysis/metabolism/pharmacology ; Wyoming
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  • 78
    Publication Date: 2014-02-07
    Description: In line with global targets agreed under the Convention on Biological Diversity, the number of marine protected areas (MPAs) is increasing rapidly, yet socio-economic benefits generated by MPAs remain difficult to predict and under debate. MPAs often fail to reach their full potential as a consequence of factors such as illegal harvesting, regulations that legally allow detrimental harvesting, or emigration of animals outside boundaries because of continuous habitat or inadequate size of reserve. Here we show that the conservation benefits of 87 MPAs investigated worldwide increase exponentially with the accumulation of five key features: no take, well enforced, old (〉10 years), large (〉100 km(2)), and isolated by deep water or sand. Using effective MPAs with four or five key features as an unfished standard, comparisons of underwater survey data from effective MPAs with predictions based on survey data from fished coasts indicate that total fish biomass has declined about two-thirds from historical baselines as a result of fishing. Effective MPAs also had twice as many large (〉250 mm total length) fish species per transect, five times more large fish biomass, and fourteen times more shark biomass than fished areas. Most (59%) of the MPAs studied had only one or two key features and were not ecologically distinguishable from fished sites. Our results show that global conservation targets based on area alone will not optimize protection of marine biodiversity. More emphasis is needed on better MPA design, durable management and compliance to ensure that MPAs achieve their desired conservation value.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Edgar, Graham J -- Stuart-Smith, Rick D -- Willis, Trevor J -- Kininmonth, Stuart -- Baker, Susan C -- Banks, Stuart -- Barrett, Neville S -- Becerro, Mikel A -- Bernard, Anthony T F -- Berkhout, Just -- Buxton, Colin D -- Campbell, Stuart J -- Cooper, Antonia T -- Davey, Marlene -- Edgar, Sophie C -- Forsterra, Gunter -- Galvan, David E -- Irigoyen, Alejo J -- Kushner, David J -- Moura, Rodrigo -- Parnell, P Ed -- Shears, Nick T -- Soler, German -- Strain, Elisabeth M A -- Thomson, Russell J -- England -- Nature. 2014 Feb 13;506(7487):216-20. doi: 10.1038/nature13022. Epub 2014 Feb 5.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Institute for Marine and Antarctic Studies, University of Tasmania, GPO Box 252-49, Hobart, Tasmania 7001, Australia. ; Institute of Marine Sciences, School of Biological Sciences, University of Portsmouth, Ferry Road, Portsmouth PO4 9LY, UK. ; 1] Institute for Marine and Antarctic Studies, University of Tasmania, GPO Box 252-49, Hobart, Tasmania 7001, Australia [2] Stockholm Resilience Centre, Stockholm University, Kraftriket 2B, SE-106 91 Stockholm, Sweden. ; School of Plant Science, University of Tasmania, GPO Box 252, Hobart, Tasmania 7001, Australia. ; Charles Darwin Foundation, Puerto Ayora, Galapagos, Ecuador. ; The Bites Lab, Natural Products and Agrobiology Institute (IPNA-CSIC), 38206 La Laguna, Tenerife, Spain. ; Elwandle Node, South African Environmental Observation network, Private Bag 1015, Grahamstown 6140, South Africa. ; Wildlife Conservation Society, Indonesia Marine Program, Jalan Atletik No. 8, Bogor Jawa Barat 16151, Indonesia. ; Department of Water, Perth, Western Australia 6000, Australia. ; Facultad de Recursos Naturales, Escuela de Ciencias del Mar, Pontificia Universidad Catolica de Valparaiso, Valparaiso, Chile. ; Centro Nacional Patagonico, Consejo Nacional de Investigaciones Cientificas y Tecnicas, Bvd Brown 2915, 9120 Puerto Madryn, Argentina. ; Channel Islands National Park, United States National Park Service, 1901 Spinnaker Dr., Ventura, California 93001, USA. ; Instituto de Biologia, Universidade Federal do Rio de Janeiro, Av. Carlos Chagas Filho 373, Rio de Janeiro 21941-902, Brazil. ; Scripps Institution of Oceanography, UC San Diego, Mail Code 0227, 9500 Gilman Dr., La Jolla, California 92093-0227, USA. ; Leigh Marine Laboratory, University of Auckland, 160 Goat Island Road, Leigh 0985, New Zealand. ; Dipartimento di Scienze Biologiche, Geologiche ed Ambientali, Universita di Bologna, Via San Alberto, Ravenna 163-48123, Italy.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24499817" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Aquatic Organisms/physiology ; Biodiversity ; Biomass ; Conservation of Natural Resources/economics/legislation & ; jurisprudence/methods/*statistics & numerical data ; Coral Reefs ; Ecology/economics/legislation & jurisprudence/methods/*statistics & numerical ; data ; *Ecosystem ; Fisheries/legislation & jurisprudence/standards/*statistics & numerical data ; Fishes/*physiology ; Marine Biology/economics/legislation & jurisprudence/methods/statistics & ; numerical data ; Seawater ; Sharks ; Silicon Dioxide ; Time Factors
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  • 79
    Publication Date: 2014-07-06
    Description: Several large and rapid changes in atmospheric temperature and the partial pressure of carbon dioxide in the atmosphere--probably linked to changes in deep ocean circulation--occurred during the last deglaciation. The abrupt temperature rise in the Northern Hemisphere and the restart of the Atlantic meridional overturning circulation at the start of the Bolling-Allerod interstadial, 14,700 years ago, are among the most dramatic deglacial events, but their underlying physical causes are not known. Here we show that the release of heat from warm waters in the deep North Atlantic Ocean probably triggered the Bolling-Allerod warming and reinvigoration of the Atlantic meridional overturning circulation. Our results are based on coupled radiocarbon and uranium-series dates, along with clumped isotope temperature estimates, from water column profiles of fossil deep-sea corals in a limited area of the western North Atlantic. We find that during Heinrich stadial 1 (the cool period immediately before the Bolling-Allerod interstadial), the deep ocean was about three degrees Celsius warmer than shallower waters above. This reversal of the ocean's usual thermal stratification pre-dates the Bolling-Allerod warming and must have been associated with increased salinity at depth to preserve the static stability of the water column. The depleted radiocarbon content of the warm and salty water mass implies a long-term disconnect from rapid surface exchanges, and, although uncertainties remain, is most consistent with a Southern Ocean source. The Heinrich stadial 1 ocean profile is distinct from the modern water column, that for the Last Glacial Maximum and that for the Younger Dryas, suggesting that the patterns we observe are a unique feature of the deglacial climate system. Our observations indicate that the deep ocean influenced dramatic Northern Hemisphere warming by storing heat at depth that preconditioned the system for a subsequent abrupt overturning event during the Bolling-Allerod interstadial.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Thiagarajan, Nivedita -- Subhas, Adam V -- Southon, John R -- Eiler, John M -- Adkins, Jess F -- England -- Nature. 2014 Jul 3;511(7507):75-8. doi: 10.1038/nature13472.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, California 91125, USA. ; Earth System Science Department, 3200 Croul Hall, University of California, Irvine, California 92697-3100, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24990748" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Anthozoa/physiology ; Atlantic Ocean ; Carbon Radioisotopes ; Global Warming/history ; History, Ancient ; *Hot Temperature ; Ice Cover ; Seawater/*analysis ; Time Factors ; *Water Movements
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  • 80
    Publication Date: 2014-08-28
    Description: The origin of tetrapods from their fish antecedents, approximately 400 million years ago, was coupled with the origin of terrestrial locomotion and the evolution of supporting limbs. Polypterus is a member of the basal-most group of ray-finned fish (actinopterygians) and has many plesiomorphic morphologies that are comparable to elpistostegid fishes, which are stem tetrapods. Polypterus therefore serves as an extant analogue of stem tetrapods, allowing us to examine how developmental plasticity affects the 'terrestrialization' of fish. We measured the developmental plasticity of anatomical and biomechanical responses in Polypterus reared on land. Here we show the remarkable correspondence between the environmentally induced phenotypes of terrestrialized Polypterus and the ancient anatomical changes in stem tetrapods, and we provide insight into stem tetrapod behavioural evolution. Our results raise the possibility that environmentally induced developmental plasticity facilitated the origin of the terrestrial traits that led to tetrapods.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Standen, Emily M -- Du, Trina Y -- Larsson, Hans C E -- England -- Nature. 2014 Sep 4;513(7516):54-8. doi: 10.1038/nature13708. Epub 2014 Aug 27.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Biology Department, University of Ottawa, Gendron Hall, 30 Marie Curie Private, Ottawa, Ontario K1N 6N5, Canada. ; Redpath Museum, McGill University, 859 Sherbrooke Street West, Montreal, Quebec H3A 0C4, Canada.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25162530" target="_blank"〉PubMed〈/a〉
    Keywords: Animal Fins/anatomy & histology/physiology ; Animals ; *Biological Evolution ; Biomechanical Phenomena ; Bone and Bones/anatomy & histology/physiology ; *Environment ; Extremities/*anatomy & histology/*growth & development ; Female ; Fishes/*anatomy & histology/classification/*growth & development/physiology ; *Locomotion ; Male ; Models, Animal ; Muscles/anatomy & histology/physiology ; Phylogeny ; Swimming/physiology ; Time Factors ; Walking/physiology
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  • 81
    facet.materialart.
    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2014-09-23
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Schiermeier, Quirin -- England -- Nature. 2014 Sep 18;513(7518):449-51.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25237696" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Career Mobility ; European Union ; Financing, Organized/economics/*organization & administration ; Job Application ; Research Personnel/*economics/standards ; Research Support as Topic/economics ; Time Factors
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  • 82
    facet.materialart.
    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2014-04-11
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Cressey, Daniel -- England -- Nature. 2014 Apr 10;508(7495):163. doi: 10.1038/508163a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24717492" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; China ; *Conservation of Natural Resources/trends ; Ecosystem ; *Extinction, Biological ; Human Activities ; *Hylobates ; Islands ; Population Density ; Time Factors ; Trees
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  • 83
    Publication Date: 2014-12-10
    Description: The concept of germ layers has been one of the foremost organizing principles in developmental biology, classification, systematics and evolution for 150 years (refs 1 - 3). Of the three germ layers, the mesoderm is found in bilaterian animals but is absent in species in the phyla Cnidaria and Ctenophora, which has been taken as evidence that the mesoderm was the final germ layer to evolve. The origin of the ectoderm and endoderm germ layers, however, remains unclear, with models supporting the antecedence of each as well as a simultaneous origin. Here we determine the temporal and spatial components of gene expression spanning embryonic development for all Caenorhabditis elegans genes and use it to determine the evolutionary ages of the germ layers. The gene expression program of the mesoderm is induced after those of the ectoderm and endoderm, thus making it the last germ layer both to evolve and to develop. Strikingly, the C. elegans endoderm and ectoderm expression programs do not co-induce; rather the endoderm activates earlier, and this is also observed in the expression of endoderm orthologues during the embryology of the frog Xenopus tropicalis, the sea anemone Nematostella vectensis and the sponge Amphimedon queenslandica. Querying the phylogenetic ages of specifically expressed genes reveals that the endoderm comprises older genes. Taken together, we propose that the endoderm program dates back to the origin of multicellularity, whereas the ectoderm originated as a secondary germ layer freed from ancestral feeding functions.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4359913/" 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/PMC4359913/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hashimshony, Tamar -- Feder, Martin -- Levin, Michal -- Hall, Brian K -- Yanai, Itai -- 310927/European Research Council/International -- England -- Nature. 2015 Mar 12;519(7542):219-22. doi: 10.1038/nature13996. Epub 2014 Dec 10.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Biology, Technion - Israel Institute of Technology, Haifa 32000, Israel. ; Department of Biology, Dalhousie University, Halifax, Nova Scotia B3H 4JI, Canada.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25487147" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Caenorhabditis elegans/cytology/*embryology/*genetics ; Cell Lineage ; Eating ; Ectoderm/cytology/embryology/metabolism ; Endoderm/cytology/embryology/*metabolism ; *Evolution, Molecular ; Gene Expression Profiling ; Gene Expression Regulation, Developmental/*genetics ; Mesoderm/cytology/embryology/metabolism ; Models, Biological ; Porifera/cytology/embryology/genetics ; Sea Anemones/cytology/embryology/genetics ; *Spatio-Temporal Analysis ; Time Factors ; Transcriptome/*genetics ; Xenopus/embryology/genetics
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  • 84
    Publication Date: 2014-12-04
    Description: Human cancers, including breast cancers, comprise clones differing in mutation content. Clones evolve dynamically in space and time following principles of Darwinian evolution, underpinning important emergent features such as drug resistance and metastasis. Human breast cancer xenoengraftment is used as a means of capturing and studying tumour biology, and breast tumour xenografts are generally assumed to be reasonable models of the originating tumours. However, the consequences and reproducibility of engraftment and propagation on the genomic clonal architecture of tumours have not been systematically examined at single-cell resolution. Here we show, using deep-genome and single-cell sequencing methods, the clonal dynamics of initial engraftment and subsequent serial propagation of primary and metastatic human breast cancers in immunodeficient mice. In all 15 cases examined, clonal selection on engraftment was observed in both primary and metastatic breast tumours, varying in degree from extreme selective engraftment of minor (〈5% of starting population) clones to moderate, polyclonal engraftment. Furthermore, ongoing clonal dynamics during serial passaging is a feature of tumours experiencing modest initial selection. Through single-cell sequencing, we show that major mutation clusters estimated from tumour population sequencing relate predictably to the most abundant clonal genotypes, even in clonally complex and rapidly evolving cases. Finally, we show that similar clonal expansion patterns can emerge in independent grafts of the same starting tumour population, indicating that genomic aberrations can be reproducible determinants of evolutionary trajectories. Our results show that measurement of genomically defined clonal population dynamics will be highly informative for functional studies using patient-derived breast cancer xenoengraftment.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Eirew, Peter -- Steif, Adi -- Khattra, Jaswinder -- Ha, Gavin -- Yap, Damian -- Farahani, Hossein -- Gelmon, Karen -- Chia, Stephen -- Mar, Colin -- Wan, Adrian -- Laks, Emma -- Biele, Justina -- Shumansky, Karey -- Rosner, Jamie -- McPherson, Andrew -- Nielsen, Cydney -- Roth, Andrew J L -- Lefebvre, Calvin -- Bashashati, Ali -- de Souza, Camila -- Siu, Celia -- Aniba, Radhouane -- Brimhall, Jazmine -- Oloumi, Arusha -- Osako, Tomo -- Bruna, Alejandra -- Sandoval, Jose L -- Algara, Teresa -- Greenwood, Wendy -- Leung, Kaston -- Cheng, Hongwei -- Xue, Hui -- Wang, Yuzhuo -- Lin, Dong -- Mungall, Andrew J -- Moore, Richard -- Zhao, Yongjun -- Lorette, Julie -- Nguyen, Long -- Huntsman, David -- Eaves, Connie J -- Hansen, Carl -- Marra, Marco A -- Caldas, Carlos -- Shah, Sohrab P -- Aparicio, Samuel -- Canadian Institutes of Health Research/Canada -- England -- Nature. 2015 Feb 19;518(7539):422-6. doi: 10.1038/nature13952. Epub 2014 Nov 26.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Department of Molecular Oncology, BC Cancer Agency, 675 West 10th Avenue, Vancouver, British Columbia V5Z 1L3, Canada [2] Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, British Columbia V6T 2B5, Canada. ; Department of Medical Oncology, BC Cancer Agency, 600 West 10th Avenue, Vancouver, British Columbia V5Z 4E6, Canada. ; Department of Molecular Oncology, BC Cancer Agency, 675 West 10th Avenue, Vancouver, British Columbia V5Z 1L3, Canada. ; 1] Department of Oncology, University of Cambridge, Hills Road, Cambridge CB2 2XZ, UK [2] Cancer Research UK Cambridge Research Institute, University of Cambridge, Li Ka Shing Centre, Cambridge CB2 0RE, UK. ; 1] Centre for High-Throughput Biology, University of British Columbia, Vancouver, British Columbia V6T 1Z4, Canada [2] Department of Physics and Astronomy, University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada. ; 1] Department of Experimental Therapeutics, BC Cancer Agency, 675 West 10th Avenue, Vancouver, British Columbia V5Z 1L3, Canada [2] The Vancouver Prostate Centre, Vancouver General Hospital and Department of Urologic Sciences, University of British Columbia, Vancouver, British Columbia V5Z 1M9, Canada. ; Michael Smith Genome Sciences Centre, Vancouver, British Columbia V5Z 1L3, Canada. ; Centre for Translational and Applied Genomics, BC Cancer Agency, 600 West 10th Avenue, Vancouver, British Columbia V5Z 4E6, Canada. ; 1] Department of Medical Genetics, University of British Columbia, Vancouver, British Columbia V6T 1Z3, Canada [2] Terry Fox Laboratory, BC Cancer Agency, Vancouver, British Columbia V5Z 1L3, Canada. ; 1] Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, British Columbia V6T 2B5, Canada [2] Centre for Translational and Applied Genomics, BC Cancer Agency, 600 West 10th Avenue, Vancouver, British Columbia V5Z 4E6, Canada. ; 1] Department of Molecular Oncology, BC Cancer Agency, 675 West 10th Avenue, Vancouver, British Columbia V5Z 1L3, Canada [2] Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, British Columbia V6T 2B5, Canada [3] Michael Smith Genome Sciences Centre, Vancouver, British Columbia V5Z 1L3, Canada. ; 1] Department of Molecular Oncology, BC Cancer Agency, 675 West 10th Avenue, Vancouver, British Columbia V5Z 1L3, Canada [2] Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, British Columbia V6T 2B5, Canada [3] Michael Smith Genome Sciences Centre, Vancouver, British Columbia V5Z 1L3, Canada [4] Centre for Translational and Applied Genomics, BC Cancer Agency, 600 West 10th Avenue, Vancouver, British Columbia V5Z 4E6, Canada.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25470049" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Breast Neoplasms/*genetics/*pathology/secondary ; Clone Cells/*metabolism/*pathology ; DNA Mutational Analysis ; Genome, Human/*genetics ; Genomics ; Genotype ; High-Throughput Nucleotide Sequencing ; Humans ; Mice ; Neoplasm Transplantation ; *Single-Cell Analysis ; Time Factors ; Transplantation, Heterologous ; *Xenograft Model Antitumor Assays/methods
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  • 85
    Publication Date: 2014-12-04
    Description: Angelman syndrome is a single-gene disorder characterized by intellectual disability, developmental delay, behavioural uniqueness, speech impairment, seizures and ataxia. It is caused by maternal deficiency of the imprinted gene UBE3A, encoding an E3 ubiquitin ligase. All patients carry at least one copy of paternal UBE3A, which is intact but silenced by a nuclear-localized long non-coding RNA, UBE3A antisense transcript (UBE3A-ATS). Murine Ube3a-ATS reduction by either transcription termination or topoisomerase I inhibition has been shown to increase paternal Ube3a expression. Despite a clear understanding of the disease-causing event in Angelman syndrome and the potential to harness the intact paternal allele to correct the disease, no gene-specific treatment exists for patients. Here we developed a potential therapeutic intervention for Angelman syndrome by reducing Ube3a-ATS with antisense oligonucleotides (ASOs). ASO treatment achieved specific reduction of Ube3a-ATS and sustained unsilencing of paternal Ube3a in neurons in vitro and in vivo. Partial restoration of UBE3A protein in an Angelman syndrome mouse model ameliorated some cognitive deficits associated with the disease. Although additional studies of phenotypic correction are needed, we have developed a sequence-specific and clinically feasible method to activate expression of the paternal Ube3a allele.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4351819/" 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/PMC4351819/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Meng, Linyan -- Ward, Amanda J -- Chun, Seung -- Bennett, C Frank -- Beaudet, Arthur L -- Rigo, Frank -- P30HD024064/HD/NICHD NIH HHS/ -- R01 HD037283/HD/NICHD NIH HHS/ -- U54 HD083092/HD/NICHD NIH HHS/ -- England -- Nature. 2015 Feb 19;518(7539):409-12. doi: 10.1038/nature13975. Epub 2014 Dec 1.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Molecular and Human Genetics, Baylor College of Medicine, and Texas Children's Hospital, Houston, Texas 77030, USA. ; Department of Core Antisense Research, Isis Pharmaceuticals, Carlsbad, California 92010, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25470045" target="_blank"〉PubMed〈/a〉
    Keywords: Alleles ; Angelman Syndrome/complications/*genetics/*therapy ; Animals ; Brain/drug effects/metabolism ; Cells, Cultured ; Disease Models, Animal ; Fathers ; Female ; Gene Silencing/drug effects ; Genomic Imprinting/genetics ; Male ; Memory Disorders/complications/genetics/therapy ; Mice ; Mice, Inbred C57BL ; Neurons/drug effects/metabolism ; Obesity/complications/genetics/therapy ; Oligonucleotides, Antisense/*genetics/pharmacology/*therapeutic use ; Phenotype ; RNA, Antisense/antagonists & inhibitors/deficiency/genetics ; RNA, Long Noncoding/*antagonists & inhibitors/*genetics ; Time Factors ; Ubiquitin-Protein Ligases/genetics/metabolism
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  • 86
    Publication Date: 2014-12-04
    Description: In human societies, cultural norms arise when behaviours are transmitted through social networks via high-fidelity social learning. However, a paucity of experimental studies has meant that there is no comparable understanding of the process by which socially transmitted behaviours might spread and persist in animal populations. Here we show experimental evidence of the establishment of foraging traditions in a wild bird population. We introduced alternative novel foraging techniques into replicated wild sub-populations of great tits (Parus major) and used automated tracking to map the diffusion, establishment and long-term persistence of the seeded innovations. Furthermore, we used social network analysis to examine the social factors that influenced diffusion dynamics. From only two trained birds in each sub-population, the information spread rapidly through social network ties, to reach an average of 75% of individuals, with a total of 414 knowledgeable individuals performing 57,909 solutions over all replicates. The sub-populations were heavily biased towards using the technique that was originally introduced, resulting in established local traditions that were stable over two generations, despite a high population turnover. Finally, we demonstrate a strong effect of social conformity, with individuals disproportionately adopting the most frequent local variant when first acquiring an innovation, and continuing to favour social information over personal information. Cultural conformity is thought to be a key factor in the evolution of complex culture in humans. In providing the first experimental demonstration of conformity in a wild non-primate, and of cultural norms in foraging techniques in any wild animal, our results suggest a much broader taxonomic occurrence of such an apparently complex cultural behaviour.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4344839/" 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/PMC4344839/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Aplin, Lucy M -- Farine, Damien R -- Morand-Ferron, Julie -- Cockburn, Andrew -- Thornton, Alex -- Sheldon, Ben C -- 250164/European Research Council/International -- BB/H021817/1/Biotechnology and Biological Sciences Research Council/United Kingdom -- BB/L006081/1/Biotechnology and Biological Sciences Research Council/United Kingdom -- England -- Nature. 2015 Feb 26;518(7540):538-41. doi: 10.1038/nature13998. Epub 2014 Dec 3.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Edward Grey Institute, Department of Zoology, University of Oxford, Oxford OX1 3PS, UK [2] Department of Evolution, Ecology and Genetics, Research School of Biology, Australian National University, Canberra, Australian Capital Territory 2600, Australia. ; 1] Edward Grey Institute, Department of Zoology, University of Oxford, Oxford OX1 3PS, UK [2] Department of Anthropology, University of California, Davis, California 95616, USA [3] Smithsonian Tropical Research Institute, Ancon 9100, Panama. ; Department of Biology, University of Ottawa, Ottawa K1N 9B2, Canada. ; Department of Evolution, Ecology and Genetics, Research School of Biology, Australian National University, Canberra, Australian Capital Territory 2600, Australia. ; Department of Biosciences, Centre for Ecology and Conservation, University of Exeter, Penryn Campus, Penryn TR10 9EZ, UK. ; 1] Edward Grey Institute, Department of Zoology, University of Oxford, Oxford OX1 3PS, UK [2] Department of Ecology and Genetics, Uppsala University, 752 36 Uppsala, Sweden.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25470065" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Animals, Wild/*physiology ; Birds/*physiology ; *Cultural Evolution ; Diffusion of Innovation ; *Feeding Behavior ; Female ; Great Britain ; Learning/*physiology ; Male ; *Social Conformity ; Time Factors
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  • 87
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    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2014-02-21
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Jones, Nicola -- England -- Nature. 2014 Feb 20;506(7488):278. doi: 10.1038/506278a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24553220" target="_blank"〉PubMed〈/a〉
    Keywords: Astronauts/economics/trends ; *Awards and Prizes ; *Moon ; Space Flight/economics/*instrumentation/*trends ; Time Factors
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  • 88
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    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2014-09-26
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2014 Sep 25;513(7519):459. doi: 10.1038/513459a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25254437" target="_blank"〉PubMed〈/a〉
    Keywords: Africa, Western/epidemiology ; Communicable Diseases, Emerging/economics/epidemiology/prevention & control ; Delivery of Health Care/economics/*organization & administration ; Developed Countries/economics ; Developing Countries/economics ; Disaster Planning/economics/*methods/statistics & numerical data ; Disease Outbreaks/economics/prevention & control/statistics & numerical data ; Hemorrhagic Fever, Ebola/economics/epidemiology/*prevention & control ; Humans ; International Cooperation ; Time Factors ; World Health Organization/economics/*organization & administration
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  • 89
    Publication Date: 2014-12-24
    Description: The plant cell wall is an important factor for determining cell shape, function and response to the environment. Secondary cell walls, such as those found in xylem, are composed of cellulose, hemicelluloses and lignin and account for the bulk of plant biomass. The coordination between transcriptional regulation of synthesis for each polymer is complex and vital to cell function. A regulatory hierarchy of developmental switches has been proposed, although the full complement of regulators remains unknown. Here we present a protein-DNA network between Arabidopsis thaliana transcription factors and secondary cell wall metabolic genes with gene expression regulated by a series of feed-forward loops. This model allowed us to develop and validate new hypotheses about secondary wall gene regulation under abiotic stress. Distinct stresses are able to perturb targeted genes to potentially promote functional adaptation. These interactions will serve as a foundation for understanding the regulation of a complex, integral plant component.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4333722/" 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/PMC4333722/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Taylor-Teeples, M -- Lin, L -- de Lucas, M -- Turco, G -- Toal, T W -- Gaudinier, A -- Young, N F -- Trabucco, G M -- Veling, M T -- Lamothe, R -- Handakumbura, P P -- Xiong, G -- Wang, C -- Corwin, J -- Tsoukalas, A -- Zhang, L -- Ware, D -- Pauly, M -- Kliebenstein, D J -- Dehesh, K -- Tagkopoulos, I -- Breton, G -- Pruneda-Paz, J L -- Ahnert, S E -- Kay, S A -- Hazen, S P -- Brady, S M -- R01 GM056006/GM/NIGMS NIH HHS/ -- R01 GM107311/GM/NIGMS NIH HHS/ -- R01GM056006/GM/NIGMS NIH HHS/ -- R01GM107311/GM/NIGMS NIH HHS/ -- R25 GM056765/GM/NIGMS NIH HHS/ -- RC2 GM092412/GM/NIGMS NIH HHS/ -- RC2GM092412/GM/NIGMS NIH HHS/ -- England -- Nature. 2015 Jan 29;517(7536):571-5. doi: 10.1038/nature14099. Epub 2014 Dec 24.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Department of Plant Biology, University of California Davis, One Shields Avenue, Davis, California 95616, USA [2] Genome Center, University of California Davis, One Shields Avenue, Davis, California 95616, USA. ; Biology Department, University of Massachusetts, Amherst, Massachusetts 01003, USA. ; Department of Plant and Microbial Biology, University of California Berkeley, Berkeley, California 94720, USA. ; Department of Plant Biology, University of California Davis, One Shields Avenue, Davis, California 95616, USA. ; Department of Plant Sciences, University of California Davis, One Shields Avenue, Davis, California 95616, USA. ; 1] Genome Center, University of California Davis, One Shields Avenue, Davis, California 95616, USA [2] Department of Computer Science, University of California Davis, One Shields Avenue, Davis, California 95616, USA. ; Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724, USA. ; 1] Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724, USA [2] US Department of Agriculture, Agricultural Research Service, Ithaca, New York 14853, USA. ; Section of Cell and Developmental Biology, Division of Biological Sciences, University of California San Diego, La Jolla, California 92093, USA. ; Theory of Condensed Matter Group, Cavendish Laboratory, University of Cambridge, Cambridge CB3 0HE, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25533953" target="_blank"〉PubMed〈/a〉
    Keywords: Arabidopsis/*genetics/growth & development/*metabolism ; Arabidopsis Proteins/genetics/metabolism ; Cell Wall/*metabolism ; DNA, Plant/genetics/metabolism ; E2F Transcription Factors/metabolism ; Feedback ; Gene Expression Regulation, Developmental/genetics ; Gene Expression Regulation, Plant/*genetics ; Gene Regulatory Networks/*genetics ; Iron/deficiency ; Organ Specificity ; Promoter Regions, Genetic/genetics ; Reproducibility of Results ; Salinity ; Time Factors ; Transcription Factors/*metabolism ; Xylem/genetics/growth & development/metabolism
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  • 90
    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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  • 91
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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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  • 92
    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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  • 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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  • 94
    Publication Date: 2013-05-17
    Description: High latitudes contain nearly half of global soil carbon, prompting interest in understanding how the Arctic terrestrial carbon balance will respond to rising temperatures. Low temperatures suppress the activity of soil biota, retarding decomposition and nitrogen release, which limits plant and microbial growth. Warming initially accelerates decomposition, increasing nitrogen availability, productivity and woody-plant dominance. However, these responses may be transitory, because coupled abiotic-biotic feedback loops that alter soil-temperature dynamics and change the structure and activity of soil communities, can develop. Here we report the results of a two-decade summer warming experiment in an Alaskan tundra ecosystem. Warming increased plant biomass and woody dominance, indirectly increased winter soil temperature, homogenized the soil trophic structure across horizons and suppressed surface-soil-decomposer activity, but did not change total soil carbon or nitrogen stocks, thereby increasing net ecosystem carbon storage. Notably, the strongest effects were in the mineral horizon, where warming increased decomposer activity and carbon stock: a 'biotic awakening' at depth.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Sistla, Seeta A -- Moore, John C -- Simpson, Rodney T -- Gough, Laura -- Shaver, Gaius R -- Schimel, Joshua P -- England -- Nature. 2013 May 30;497(7451):615-8. doi: 10.1038/nature12129. Epub 2013 May 15.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Ecology, Evolution and Marine Biology, University of California Santa Barbara, Santa Barbara, California 93108, USA. sistla@lifesci.ucsb.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23676669" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Arctic Regions ; Biomass ; Carbon/*analysis ; *Carbon Cycle ; *Cold Climate ; Discriminant Analysis ; *Ecosystem ; Food Chain ; Global Warming/*statistics & numerical data ; History, 20th Century ; History, 21st Century ; Nitrogen/metabolism ; Photosynthesis ; Plants/metabolism ; Rain ; Soil/analysis/*chemistry/parasitology ; Soil Microbiology ; *Temperature ; Time Factors ; Uncertainty
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 95
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    Nature Publishing Group (NPG)
    Publication Date: 2013-09-06
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Abbott, Alison -- England -- Nature. 2013 Sep 5;501(7465):18. doi: 10.1038/501018a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24005397" target="_blank"〉PubMed〈/a〉
    Keywords: Adult ; Aged ; Aging/physiology ; Biomedical Enhancement/*methods ; Computers ; Female ; Humans ; Middle Aged ; Mild Cognitive Impairment/*prevention & control ; Neuronal Plasticity/physiology ; Neuropsychological Tests ; Psychomotor Performance ; *Task Performance and Analysis ; Time Factors ; *Video Games
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    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: 2013-05-31
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hayden, Erika Check -- England -- Nature. 2013 May 30;497(7451):546-7. doi: 10.1038/497546a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23719441" target="_blank"〉PubMed〈/a〉
    Keywords: Aged, 80 and over ; *Awards and Prizes ; Exome/genetics ; Female ; Genomics/*economics/*methods/trends ; Goals ; Humans ; Inventions/*economics ; Male ; Marketing ; Public Opinion ; Quality Control ; Sequence Analysis, DNA/*economics/*methods/trends ; Time Factors
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 97
    Publication Date: 2013-07-23
    Description: The dynamics of adaptation determine which mutations fix in a population, and hence how reproducible evolution will be. This is central to understanding the spectra of mutations recovered in the evolution of antibiotic resistance, the response of pathogens to immune selection, and the dynamics of cancer progression. In laboratory evolution experiments, demonstrably beneficial mutations are found repeatedly, but are often accompanied by other mutations with no obvious benefit. Here we use whole-genome whole-population sequencing to examine the dynamics of genome sequence evolution at high temporal resolution in 40 replicate Saccharomyces cerevisiae populations growing in rich medium for 1,000 generations. We find pervasive genetic hitchhiking: multiple mutations arise and move synchronously through the population as mutational 'cohorts'. Multiple clonal cohorts are often present simultaneously, competing with each other in the same population. Our results show that patterns of sequence evolution are driven by a balance between these chance effects of hitchhiking and interference, which increase stochastic variation in evolutionary outcomes, and the deterministic action of selection on individual mutations, which favours parallel evolutionary solutions in replicate populations.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3758440/" 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/PMC3758440/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Lang, Gregory I -- Rice, Daniel P -- Hickman, Mark J -- Sodergren, Erica -- Weinstock, George M -- Botstein, David -- Desai, Michael M -- GM046406/GM/NIGMS NIH HHS/ -- GM071508/GM/NIGMS NIH HHS/ -- P50 GM071508/GM/NIGMS NIH HHS/ -- R01 GM046406/GM/NIGMS NIH HHS/ -- R37 GM046406/GM/NIGMS NIH HHS/ -- England -- Nature. 2013 Aug 29;500(7464):571-4. doi: 10.1038/nature12344. Epub 2013 Jul 21.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Lewis-Sigler Institute for Integrative Genomics and Department of Molecular Biology, Princeton University, Princeton, New Jersey 08544, USA. glang@lehigh.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23873039" target="_blank"〉PubMed〈/a〉
    Keywords: Adaptation, Physiological/genetics ; Cell Nucleus/genetics ; Clone Cells/*cytology/metabolism ; *Evolution, Molecular ; Genes, Fungal/genetics ; Mutation/genetics ; Saccharomyces cerevisiae/classification/cytology/*genetics/*growth & development ; Stochastic Processes ; Time Factors
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 98
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    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2013-05-03
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ledford, Heidi -- England -- Nature. 2013 May 2;497(7447):17-8. doi: 10.1038/497017a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23636372" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Animals, Genetically Modified/genetics ; China ; Fisheries/economics ; Food Industry/economics/trends ; Food, Genetically Modified/economics/*standards/*supply & distribution ; Growth Hormone/genetics/metabolism ; Salmon/*genetics ; Time Factors ; United States ; United States Food and Drug Administration/*legislation & jurisprudence
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 99
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    Unknown
    Nature Publishing Group (NPG)
    Publication Date: 2013-01-25
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Butler, Declan -- England -- Nature. 2013 Jan 24;493(7433):460. doi: 10.1038/493460a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23344335" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Directed Molecular Evolution ; Ferrets/virology ; Guidelines as Topic ; Humans ; Influenza A Virus, H5N1 Subtype/classification/genetics/*pathogenicity ; Influenza, Human/transmission/*virology ; International Cooperation ; Policy Making ; Risk Assessment/*methods/trends ; Security Measures/*trends ; Time Factors ; World Health Organization
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 100
    Publication Date: 2013-02-22
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Swing, Kelly -- England -- Nature. 2013 Feb 21;494(7437):314. doi: 10.1038/494314b.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23426316" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Conservation of Natural Resources/economics/*statistics & numerical data ; Endangered Species/economics/statistics & numerical data ; Fishes/*physiology ; Food Supply/*economics/*statistics & numerical data ; Population Density ; Time Factors ; Tuna/physiology
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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