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  • 1
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    An inter-comparison of inverse models for estimating sources and sinks of CO2 using GOSAT measurements (2015)
    Wiley
    Details
    Publication Date: 2015-05-08
    Description: This study presents the outcome of an inverse modeling inter-comparison experiment on the use of total column CO 2 retrievals from GOSAT for quantifying global sources and sinks of CO 2 . Eight research groups submitted inverse modeling results for the first year of GOSAT measurements. Inversions were carried out using only GOSAT data, a combination of GOSAT and surface measurements, and using only surface measurements. As expected, the most robust flux estimates are obtained at large scales (e.g. within 20% of the annual flux at the global scale), and they quickly diverge towards the scale of the sub-continental TRANSCOM regions and beyond (to〉100% of the annual flux). We focus our analysis on a shift in the CO 2 uptake over land from the Tropics towards the Northern Hemisphere Extra tropics of ~1 PgC/yr when GOSAT data are used in the inversions. This shift is largely driven by TRANSCOM regions Europe and Northern Africa, showing, respectively, an increased uptake and release of 0.7 and 0.9 PgC/yr. Inversions using GOSAT data show a reduced gradient between mid latitudes of the Northern Hemisphere and the Tropics, consistent with the latitudinal shift in carbon uptake. However, the reduced gradients degrade the agreement with background aircraft and surface measurements. To narrow the range of inversion-derived flux estimates will require further efforts to understand the differences not only between the retrieval schemes but also between inverse models, as their contributions to the overall uncertainty are estimated to be of similar magnitude.
    Print ISSN: 0148-0227
    Topics: Geosciences , Physics
    Published by Wiley on behalf of American Geophysical Union (AGU).
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  • 2
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    A fault-tolerant addressable spin qubit in a natural silicon quantum dot (2016)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2016-08-14
    Description: Fault-tolerant quantum computing requires high-fidelity qubits. This has been achieved in various solid-state systems, including isotopically purified silicon, but is yet to be accomplished in industry-standard natural (unpurified) silicon, mainly as a result of the dephasing caused by residual nuclear spins. This high fidelity can be achieved by speeding up the qubit operation and/or prolonging the dephasing time, that is, increasing the Rabi oscillation quality factor Q (the Rabi oscillation decay time divided by the rotation time). In isotopically purified silicon quantum dots, only the second approach has been used, leaving the qubit operation slow. We apply the first approach to demonstrate an addressable fault-tolerant qubit using a natural silicon double quantum dot with a micromagnet that is optimally designed for fast spin control. This optimized design allows access to Rabi frequencies up to 35 MHz, which is two orders of magnitude greater than that achieved in previous studies. We find the optimum Q = 140 in such high-frequency range at a Rabi frequency of 10 MHz. This leads to a qubit fidelity of 99.6% measured via randomized benchmarking, which is the highest reported for natural silicon qubits and comparable to that obtained in isotopically purified silicon quantum dot–based qubits. This result can inspire contributions to quantum computing from industrial communities.
    Electronic ISSN: 2375-2548
    Topics: Natural Sciences in General
    Published by American Association for the Advancement of Science (AAAS)
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  • 3
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    Antiflorigen regulates chrysanthemum flowering [Plant Biology] (2013)
    National Academy of Sciences
    Details
    Publication Date: 2013-10-16
    Description: Photoperiodic floral induction has had a significant impact on the agricultural and horticultural industries. Changes in day length are perceived in leaves, which synthesize systemic flowering inducers (florigens) and inhibitors (antiflorigens) that determine floral initiation at the shoot apex. Recently, FLOWERING LOCUS T (FT) was found to be a florigen;...
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
    Published by National Academy of Sciences
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  • 4
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    Phonon drag effect on Seebeck coefficient of ultrathin P-doped Si-on-insulator layers (2014)
    American Institute of Physics (AIP)
    Details
    Publication Date: 2014-09-10
    Description: The contribution of the phonon drag effect to the Seebeck coefficient of P-doped ultrathin Si-on-insulator (SOI) layers with a thickness of 9–100 nm is investigated for near-room-temperature applications. The contribution is found to be significant in the lightly doped region and to depend on the carrier concentration with increasing carrier concentration above ∼5 × 10 18  cm −3 . Moreover, the contribution is not influenced by SOI thickness above 9 nm. On the basis of phonon mean-free-path calculations considering phonon scattering processes, the phonon drag part of the SOI Seebeck coefficient in the lightly doped region is mainly governed by phonon-phonon scattering. Furthermore, in higher concentration regions, the dependence of phonon drag can be qualitatively explained by the interaction between phonons and doped impurities.
    Print ISSN: 0003-6951
    Electronic ISSN: 1077-3118
    Topics: Physics
    Published by American Institute of Physics (AIP)
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  • 5
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    The nature of the globular- to fibrous-actin transition (2009)
    Nature Publishing Group (NPG)
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    Publication Date: 2009-01-23
    Description: Actin plays crucial parts in cell motility through a dynamic process driven by polymerization and depolymerization, that is, the globular (G) to fibrous (F) actin transition. Although our knowledge about the actin-based cellular functions and the molecules that regulate the G- to F-actin transition is growing, the structural aspects of the transition remain enigmatic. We created a model of F-actin using X-ray fibre diffraction intensities obtained from well oriented sols of rabbit skeletal muscle F-actin to 3.3 A in the radial direction and 5.6 A along the equator. Here we show that the G- to F-actin conformational transition is a simple relative rotation of the two major domains by about 20 degrees. As a result of the domain rotation, the actin molecule in the filament is flat. The flat form is essential for the formation of stable, helical F-actin. Our F-actin structure model provides the basis for understanding actin polymerization as well as its molecular interactions with actin-binding proteins.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Oda, Toshiro -- Iwasa, Mitsusada -- Aihara, Tomoki -- Maeda, Yuichiro -- Narita, Akihiro -- England -- Nature. 2009 Jan 22;457(7228):441-5. doi: 10.1038/nature07685.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉X-ray Structural Analysis Research Team, RIKEN SPring-8 Center, RIKEN Harima Institute, 1-1-1, Kouto, Sayo, Hyogo 679-5148, Japan. toda@spring8.or.jp〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/19158791" target="_blank"〉PubMed〈/a〉
    Keywords: Actins/*chemistry/*metabolism ; Animals ; Biopolymers/chemistry/metabolism ; Cell Movement ; Glutamine/metabolism ; Hydrolysis ; Magnetics ; Models, Molecular ; Muscle Contraction ; Muscle, Skeletal/chemistry ; Protein Structure, Quaternary ; Protein Subunits/chemistry/metabolism ; Rabbits ; X-Ray Diffraction
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Published by Nature Publishing Group (NPG)
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  • 6
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    Oxygen radicals in influenza-induced pathogenesis and treatment with pyran polymer-conjugated SOD (1989)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 1989-05-26
    Description: The pathogenicity of influenza virus infection in the mice involves, at least in part, overreaction of the immune responses of the host rather than a direct effect of virus multiplication. Xanthine oxidase, which is responsible for the generation of oxygen free radicals, was elevated in serum and lung tissue of mice infected with influenza virus. To test the theory that oxygen-free radicals are involved in pathogenesis, free radicals were removed by injecting superoxide dismutase (SOD), a specific superoxide radical scavenger, which was conjugated with a pyran copolymer. The conjugate protected mice against a potentially lethal influenza virus infection if administered 5 to 8 days after infection. These findings indicate that oxygen radicals are important in the pathogenesis of influenza virus infection, and that a polymer-conjugated SOD has therapeutic potential for this virus infection and other diseases associated with free radicals.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Oda, T -- Akaike, T -- Hamamoto, T -- Suzuki, F -- Hirano, T -- Maeda, H -- New York, N.Y. -- Science. 1989 May 26;244(4907):974-6.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Microbiology, Kumamoto University Medical School, Japan.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/2543070" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Bronchoalveolar Lavage Fluid ; Free Radicals ; Lung/enzymology/pathology ; Mice ; Orthomyxoviridae Infections/drug therapy/*metabolism/pathology ; Oxygen/*metabolism ; Phagocytes/metabolism/pathology ; *Polymers/administration & dosage/therapeutic use ; *Pyran Copolymer/administration & dosage/therapeutic use ; Superoxide Dismutase/administration & dosage/pharmacokinetics/*therapeutic use ; Superoxides/metabolism ; Xanthine Oxidase/blood/metabolism
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 7
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    Option values of solar radiation management [Sustainability Science] (2016)
    National Academy of Sciences
    Details
    Publication Date: 2016-05-25
    Description: Although solar radiation management (SRM) might play a role as an emergency geoengineering measure, its potential risks remain uncertain, and hence there are ethical and governance issues in the face of SRM’s actual deployment. By using an integrated assessment model, we first present one possible methodology for evaluating the value...
    Keywords: Sustainability Science
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
    Published by National Academy of Sciences
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  • 8
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    Crystal structure of the human centromeric nucleosome containing CENP-A (2011)
    Nature Publishing Group (NPG)
    Details
    Publication Date: 2011-07-12
    Description: In eukaryotes, accurate chromosome segregation during mitosis and meiosis is coordinated by kinetochores, which are unique chromosomal sites for microtubule attachment. Centromeres specify the kinetochore formation sites on individual chromosomes, and are epigenetically marked by the assembly of nucleosomes containing the centromere-specific histone H3 variant, CENP-A. Although the underlying mechanism is unclear, centromere inheritance is probably dictated by the architecture of the centromeric nucleosome. Here we report the crystal structure of the human centromeric nucleosome containing CENP-A and its cognate alpha-satellite DNA derivative (147 base pairs). In the human CENP-A nucleosome, the DNA is wrapped around the histone octamer, consisting of two each of histones H2A, H2B, H4 and CENP-A, in a left-handed orientation. However, unlike the canonical H3 nucleosome, only the central 121 base pairs of the DNA are visible. The thirteen base pairs from both ends of the DNA are invisible in the crystal structure, and the alphaN helix of CENP-A is shorter than that of H3, which is known to be important for the orientation of the DNA ends in the canonical H3 nucleosome. A structural comparison of the CENP-A and H3 nucleosomes revealed that CENP-A contains two extra amino acid residues (Arg 80 and Gly 81) in the loop 1 region, which is completely exposed to the solvent. Mutations of the CENP-A loop 1 residues reduced CENP-A retention at the centromeres in human cells. Therefore, the CENP-A loop 1 may function in stabilizing the centromeric chromatin containing CENP-A, possibly by providing a binding site for trans-acting factors. The structure provides the first atomic-resolution picture of the centromere-specific nucleosome.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Tachiwana, Hiroaki -- Kagawa, Wataru -- Shiga, Tatsuya -- Osakabe, Akihisa -- Miya, Yuta -- Saito, Kengo -- Hayashi-Takanaka, Yoko -- Oda, Takashi -- Sato, Mamoru -- Park, Sam-Yong -- Kimura, Hiroshi -- Kurumizaka, Hitoshi -- England -- Nature. 2011 Jul 10;476(7359):232-5. doi: 10.1038/nature10258.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Laboratory of Structural Biology, Graduate School of Advanced Science and Engineering, Waseda University, 2-2 Wakamatsu-cho, Shinjuku-ku, Tokyo 162-8480, Japan.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21743476" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acid Sequence ; Autoantigens/*chemistry/metabolism ; Base Sequence ; Chromosomal Proteins, Non-Histone/*chemistry/metabolism ; Crystallography, X-Ray ; DNA/*chemistry/genetics/metabolism ; Histones/*chemistry/metabolism ; Humans ; Models, Molecular ; Molecular Conformation ; Molecular Sequence Data ; Nucleosomes/*chemistry/genetics/metabolism
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Published by Nature Publishing Group (NPG)
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  • 9
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    Pathogenic exon-trapping by SVA retrotransposon and rescue in Fukuyama muscular dystrophy (2011)
    Nature Publishing Group (NPG)
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    Publication Date: 2011-10-08
    Description: Fukuyama muscular dystrophy (FCMD; MIM253800), one of the most common autosomal recessive disorders in Japan, was the first human disease found to result from ancestral insertion of a SINE-VNTR-Alu (SVA) retrotransposon into a causative gene. In FCMD, the SVA insertion occurs in the 3' untranslated region (UTR) of the fukutin gene. The pathogenic mechanism for FCMD is unknown, and no effective clinical treatments exist. Here we show that aberrant messenger RNA (mRNA) splicing, induced by SVA exon-trapping, underlies the molecular pathogenesis of FCMD. Quantitative mRNA analysis pinpointed a region that was missing from transcripts in patients with FCMD. This region spans part of the 3' end of the fukutin coding region, a proximal part of the 3' UTR and the SVA insertion. Correspondingly, fukutin mRNA transcripts in patients with FCMD and SVA knock-in model mice were shorter than the expected length. Sequence analysis revealed an abnormal splicing event, provoked by a strong acceptor site in SVA and a rare alternative donor site in fukutin exon 10. The resulting product truncates the fukutin carboxy (C) terminus and adds 129 amino acids encoded by the SVA. Introduction of antisense oligonucleotides (AONs) targeting the splice acceptor, the predicted exonic splicing enhancer and the intronic splicing enhancer prevented pathogenic exon-trapping by SVA in cells of patients with FCMD and model mice, rescuing normal fukutin mRNA expression and protein production. AON treatment also restored fukutin functions, including O-glycosylation of alpha-dystroglycan (alpha-DG) and laminin binding by alpha-DG. Moreover, we observe exon-trapping in other SVA insertions associated with disease (hypercholesterolemia, neutral lipid storage disease) and human-specific SVA insertion in a novel gene. Thus, although splicing into SVA is known, we have discovered in human disease a role for SVA-mediated exon-trapping and demonstrated the promise of splicing modulation therapy as the first radical clinical treatment for FCMD and other SVA-mediated diseases.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3412178/" 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/PMC3412178/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Taniguchi-Ikeda, Mariko -- Kobayashi, Kazuhiro -- Kanagawa, Motoi -- Yu, Chih-chieh -- Mori, Kouhei -- Oda, Tetsuya -- Kuga, Atsushi -- Kurahashi, Hiroki -- Akman, Hasan O -- DiMauro, Salvatore -- Kaji, Ryuji -- Yokota, Toshifumi -- Takeda, Shin'ichi -- Toda, Tatsushi -- T32 AR056993/AR/NIAMS NIH HHS/ -- England -- Nature. 2011 Oct 5;478(7367):127-31. doi: 10.1038/nature10456.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Division of Neurology/Molecular Brain Science, Kobe University Graduate School of Medicine, Kobe 650-0017, Japan.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21979053" target="_blank"〉PubMed〈/a〉
    Keywords: 3' Untranslated Regions/genetics ; Alternative Splicing/drug effects/*genetics ; Animals ; Disease Models, Animal ; Dystroglycans/metabolism ; Exons/*genetics ; Gene Knock-In Techniques ; Glycosylation ; Humans ; Introns/genetics ; Japan ; Laminin/metabolism ; Membrane Proteins/genetics/metabolism ; Mice ; Molecular Sequence Data ; Mutagenesis, Insertional/drug effects/genetics ; Oligonucleotides, Antisense/genetics/pharmacology/therapeutic use ; RNA Isoforms/genetics ; RNA Splice Sites/genetics ; Retroelements/*genetics ; Walker-Warburg Syndrome/*genetics/*pathology/therapy
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Published by Nature Publishing Group (NPG)
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  • 10
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    A molecular ruler determines the repeat length in eukaryotic cilia and flagella (2014)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2014-11-15
    Description: Existence of cellular structures with specific size raises a fundamental question in biology: How do cells measure length? One conceptual answer to this question is by a molecular ruler, but examples of such rulers in eukaryotes are lacking. In this work, we identified a molecular ruler in eukaryotic cilia and flagella. Using cryo-electron tomography, we found that FAP59 and FAP172 form a 96-nanometer (nm)-long complex in Chlamydomonas flagella and that the absence of the complex disrupted 96-nm repeats of axonemes. Furthermore, lengthening of the FAP59/172 complex by domain duplication resulted in extension of the repeats up to 128 nm, as well as duplication of specific axonemal components. Thus, the FAP59/172 complex is the molecular ruler that determines the 96-nm repeat length and arrangements of components in cilia and flagella.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Oda, Toshiyuki -- Yanagisawa, Haruaki -- Kamiya, Ritsu -- Kikkawa, Masahide -- New York, N.Y. -- Science. 2014 Nov 14;346(6211):857-60. doi: 10.1126/science.1260214.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Cell Biology and Anatomy, Graduate School of Medicine, The University of Tokyo, 7-3-1 Hongo Bunkyo-ku, Tokyo, 113-0033, Japan. ; Department of Biological Science, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo Bunkyo-ku, Tokyo, 113-0033, Japan. Department of Life Science, Faculty of Science, Gakushuin University, 1-5-1 Mejiro, Toshima-ku, Tokyo, 171-8588, Japan. ; Department of Cell Biology and Anatomy, Graduate School of Medicine, The University of Tokyo, 7-3-1 Hongo Bunkyo-ku, Tokyo, 113-0033, Japan. mkikkawa@m.u-tokyo.ac.jp.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25395538" target="_blank"〉PubMed〈/a〉
    Keywords: Axonemal Dyneins/*chemistry/genetics/ultrastructure ; Chlamydomonas/*physiology/ultrastructure ; Cilia/physiology/ultrastructure ; Eukaryotic Cells/physiology/ultrastructure ; Flagella/*physiology/ultrastructure ; Protein Conformation
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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