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Exome-wide variation in a diverse barley panel reveals genetic associations with ten agronomic traits in Eastern landraces

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Journal of Genetics and Genomics 2023年第4期50卷 241-252页

作者： June-Sik Kim Kotaro Takahagi Komaki Inoue Minami Shimizu Yukiko Uehara.yamaguchi Asaka Kanatani Daisuke Saisho Ryuei Nishii Alexander ELipka Takashi Hirayama Kazuhiro Sato Keiichi Mochida Bioproductivity Informatics Research Team RIKEN Center for Sustainable Resource ScienceYokohama 230-0045Japan Institute of Plant Science and Resources Okayama UniversityKurashiki 710-0046Japan Kihara Institute for Biological Research Yokohama City UniversityYokohama 244-0813Japan Graduate School of Nanobioscience Yokohama City UniversityYokohama 236-0027Japan School of Information and Data Sciences Nagasaki UniversityNagasaki 852-8521Japan Department of Crop Sciences University of IllinoisUrbanaIL 61801USA Microalgae Production Control Technology Laboratory RIKEN Baton Zone ProgramRIKEN Cluster for ScienceTechnology and Innovation HubYokohama 230-0045Japan

Barley(Hordeum vulgare ***)is one of the first crops to be domesticated and is adapted to a wide range of *** barley germplasm collections possess valuable allelic variations that could further improve barley *** barley genomics has offered a global picture of allelic variation among varieties and its association with various agronomic traits,polymorphisms from East Asian varieties remain *** this study,we analyze exome polymorphisms in a panel of 274 barley varieties collected worldwide,including 137 varieties from East Asian countries and *** reveal the underlying population structure and conduct genome-wide association studies for 10 agronomic ***,we examin genome-wide associations for traits related to grain size such as awn length and glume *** results demonstrate the value of diverse barley germplasm panels containing Eastern varieties,highlighting their distinct genomic signatures relative to Western subpopulations.

关键词： Barley Exome-seq Genome-wide association study(GWAS) Population structure Allelic variation

On/off switching of adhesion in gecko-inspired adhesives

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Biosurface and Biotribology 2021年第2期7卷 83-89页

作者： Tetsuo yamaguchi Akira Akamine Yoshinori Sawae Department of Biomaterial Sciences The University of TokyoTokyoJapan Department of Mechanical Engineering Kyushu UniversityFukuokaJapan International Institute for Carbon‐Neutral Energy Research Kyushu UniversityFukuokaJapan

In this study,the adhesion-detachment behaviour of a gecko-inspired adhesive pad was investigated to understand the on/off switching mechanisms of adhesion in gecko feet.A macroscopic spatula model was fabricated using silicone rubber,and adhesion tests combining lateral sliding and vertical debonding were *** was observed that the contact state and the adhesion force of the pad vary considerably with the direction of lateral sliding prior to debonding,and that the pad achieves adhesion during debonding even when it loses contact due to excess lateral *** results explain the mech-anisms behind the on/off switching and stable adhesion of gecko feet,and suggest the possibility of developing new-generation adhesives capable of switchable adhesion.

关键词： rubber macroscopic behaviour

How do Plants Organize Microtubules Without a Centrosome?

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Journal of Integrative Plant Biology 2007年第8期49卷 1154-1163页

作者： TakashiMurata TakakoTanahashi Tomoaki Nishiyama Kazuo yamaguchi Mitsuyasu Hasebe National Institute for Basic Biology Okazaki 444-8585Japan Department of Basic BiologyThe Graduate University for Advanced StudiesOkazaki 444-8585Japan Advanced Science Research Center Kanazawa UniversityTakaramachi 13-1Kanazawa 920-0934Japan ERATOJapan Science and Technology AgencyTakaramachi 13-1Kanazawa 920-0934Japan Advanced Science Research Center Kanazawa UniversityTakaramachi 13-1Kanazawa 920-0934Japan Graduate School of Natural Science and TechnologyKanazawa UniversityKanazawa 920-1192Japan National Institute for Basic Biology Okazaki 444-8585Japan Department of Basic BiologyThe Graduate University for Advanced StudiesOkazaki 444-8585Japan ERATOJapan Science and Technology AgencyOkazaki 444-8585Japan

A microtubule nucleates from a γ-tubuUn complex, which consists of γ-tubulin, proteins from the SPC971SPC98 family, and the WD40 motif protein GCP-WD. We analyzed the phylogenetic relationships of the genes encoding these proteins and found that the components of this complex are widely conserved among land plants and other eukaryotes. By contrast, the interphase and mitotic arrays of microtubules in land plants differ from those in other eukaryotes. In the interphase cortical array, the majority of microtubules nucleate on existing microtubules in the absence of conspicuous microtubule organizing centers （MTOCs）, such as a centrosome. During mitosis, the spindle also forms in the absence of conspicuous MTOCs. Both poles of the spindle are broad, and branched structures of microtubules called microtubule converging centers form at the poles. In this review, we hypothesize that the microtubule converging centers form via microtubule-dependent microtubule nucleation, as in the case of the interphase arrays. The evolutionary insights arising from the molecular basis of the diversity in microtubule organization are discussed.

关键词： cortical microtubules evolution γ-tubulin microtubule nucleation mitotic spindle.

Differential Responses Between Monocytes and Monocyte-Derived Macrophages for Lipopolysaccharide Stimulation of Calves

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Cellular & Molecular Immunology 2009年第3期6卷 223-229页

作者： Yijie Guo Guoqi Zhao Sachi Tanaka Takahiro yamaguchi Laboratory of animal nutrition Graduate School of Animal Science and Technology Yangzhou University Wen Hui Road Jiangsu 225009 China Laboratory of Functional Morphology Graduate School of Agricultural Science Tohoku University 1-1 Tsutsumidori-Amamiyamachi Aobaku Sendai 981-8555 Japan

In this experiment Toll-like receptor expression pattern in monocytes and monocyte-derived macrophages by lipopolysaccharide （LPS） stimulation was examined. Jugular venous blood was collected from four Japanese calves, and the peripheral blood mononuclear cells （PBMCs） were isolated. The cells were directly used for collecting monocytes by magnetic cell sorting or cultured for 7 days to collect monocyte-derived macrophages in Repcell. Then we analyzed the mRNA expression pattern of TLRs and cytokines in monocytes and monocyte-derived macrophages after LPS stimulation for 24 h. LPS stimulation of both monocytes and monocyte-derived macrophages resulted in an increase in the levels of mRNA transcripts for TNF-α IL-6 and IL-8. Moreover, TNF-α and IL-6 mRNA expressions were significantly augmented by LPS stimulation in monocyte-derived macrophages. TLRs mRNA expressions were unchanged after LPS stimulation of monocytes, while TLRs mRNA expressions in monocyte-derived macrophages were complicated. TLR1, 3, 5, 8 and 10 were significantly decreased after LPS stimulation and there were no differences in the mRNA expressions of TLR2, 4, 6 and 7 between the groups of control and LPS stimulation. Besides, no expression of TLR9 was found. As antigen presenting cells, monocytes and monocyte-derived macrophages respond differently to LPS, so they may have different functions in the innate immune system.

关键词： Toll-like receptor monocyte monocyte-derived macrophage bovine

Flow and geochemical modeling of drainage from Tomitaka mine,Miyazaki,Japan

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Journal of Environmental Sciences 2015年第10期27卷 130-143页

作者： Kohei yamaguchi Shingo Tomiyama Hideya Metugi Hiroyuki Ii Akira Ueda Mitsubishi Materials Corporation 1-297 KitabukuroOmiyaSaitama 330-0835Japan Mitsubishi Materials Techno Corporation 1-14-16 KudankitaChiyoda-kuTokyo 102-8205Japan Faculty of Systems Engineering Wakayama University Japan Oil Gas and Metals National Corporation Graduate School Division of Science and Engineering University of Toyama

The chemistry and flow of water in the abandoned Tomitaka mine of Miyazaki, western Japan were investigated. This mine is located in a non-ferrous metal deposit and acid mine drainage issues from it. The study was undertaken to estimate the quantities of mine drainage that needs to be treated in order to avoid acidification of local rivers, taking into account seasonal variations in rainfall. Numerical models aimed to reproduce observed water levels and fluxes and chemical variations of groundwater and mine drainage. Rock–water interactions that may explain the observed variations in water chemistry are proposed. The results show that：（1） rain water infiltrates into the deeper bedrock through a highly permeable zone formed largely by stopes that are partially filled with spoil from excavations（ore minerals and host rocks）;（2） the water becomes acidic（p H from 3 to 4） as dissolved oxygen oxidizes pyrite;（3） along the flow path through the rocks, the redox potential of the water becomes reducing, such that pyrite becomes stable and p H of the mine drainage becomes neutral; and（4） upon leaving the mine, the drainage becomes acidic again due to oxidation of pyrite in the rocks. The present numerical model with considering of the geochemical characteristics can simulate the main variations in groundwater flow and water levels in and around the Tomitaka mine, and apply to the future treatment of the mine drainage.

关键词： Mine drainage Hydrogen isotope Oxygen isotope Rock–water interaction Water movement

Photocatalysis:from solar light to hydrogen energy

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Frontiers in Energy 2021年第3期15卷 565-567页

作者： Wenfeng SHANGGUAN Akihiko KUDO Zhi JIANG Yuichi yamaguchi Research Center for Combustion and Environment Technology Shanghai Jiao Tong UniversityShanghai 200240China Department of Applied Chemistry Faculty of ScienceTokyo University of ScienceTokyo 162-8601Japan

The exploitation and utilization of fossil energy has caused serious problems such as environmental pollution and climate *** is imperative to develop renewable and clean energy *** energy is recognized as one of the most superior energy carriers in the world because of its characteristics of high energy density,convenient storage and transportation,and pollution-free energy conversion *** energy sources could be converted to hydrogen energy,of which,solar energy is abundant and ***,nowadays,the efficient conversion of solar energy to hydrogen energy has become one of the hot topics in the renewable energy *** based on the principles of Honda-Fujishima effect provides an opportunity to address the above *** recent years have witnessed the rapid growth of photocatalytic hydrogen production from photocatalysis and photoelectrocatalysis via solar light.

关键词： catalysis pollution convenient

Two-dimensional quantum transport of multivalley （111） surface state in topological crystalline insulator SnTe thin films

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Nano Research 2016年第2期9卷 490-498页

作者： Ryota Akiyama Kazuki Fujisawa Tomonari yamaguchi Ryo Ishikawa Shinji Kuroda Institute of Materials Science University of Tsukuba Tsukuba 305-8573 Japan

The magneto-transport properties of （111）-oriented single-crystal thin films of SnTe were investigated. SnTe （111） thin films were epitaxially grown on a BaF2 substrate by molecular beam epitaxy. By optimizing the growth conditions and the thickness of the films, the bulk carrier density could be reduced, making it possible to detect the surface transport. Magneto-conductance （MC） measurements show a cusp-like feature around zero magnetic field, which is attributed to the weak-antilocalization effect of the transport in the topological surface state. Detailed analysis of this negative MC reveals a reduced number of transport channels contributing to the surface transport, suggesting strong coupling between Dirac valleys on the SnTe （111） surface, as a characteristic feature of the transport in the multivalley structure of topological crystalline insulators.

关键词： SnTe (111) films topological crystalline insulators weak antilocalization phase coherence length Dirac valleys

Possible Sources of Forecast Errors Generated by the Global/Regional Assimilation and Prediction System for Landfalling Tropical Cyclones. Part Ⅱ: Model Uncertainty

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Advances in Atmospheric Sciences 2018年第10期35卷 1277-1290页

作者： Feifan ZHOU Wansuo DUAN He ZHANG Munehiko yamaguchi Laboratory of Cloud-Precipitation Physics and Severe Storms Institute of Atmospheric PhysicsChinese Academy of SciencesBeijing 100029China State Key Laboratory of Numerical Modeling for Atmospheric Sciences and Geophysical Fluid Dynamics Institute of Atmospheric PhysicsChinese Academy of SciencesBeijing 100029China International Center for Climate and Environment Sciences(ICCES) Institute of Atmospheric PhysicsChinese Academy of SciencesBeijing 100029China Meteorological Research Institute of the Japan Meteorological Agency Tsukuba 305-0052Japan University of Chinese Academy of Sciences Beijing 100049China

This paper investigates the possible sources of errors associated with tropical cyclone(TC) tracks forecasted using the Global/Regional Assimilation and Prediction System(GRAPES). In Part I, it is shown that the model error of GRAPES may be the main cause of poor forecasts of landfalling TCs. Thus, a further examination of the model error is the focus of Part *** model error as a type of forcing, the model error can be represented by the combination of good forecasts and bad forecasts. Results show that there are systematic model errors. The model error of the geopotential height component has periodic features, with a period of 24 h and a global pattern of wavenumber 2 from west to east located between 60?S and 60?N. This periodic model error presents similar features as the atmospheric semidiurnal tide, which reflect signals from tropical diabatic heating, indicating that the parameter errors related to the tropical diabatic heating may be the source of the periodic model error. The above model errors are subtracted from the forecast equation and a series of new forecasts are made. The average forecasting capability using the rectified model is improved compared to simply improving the initial conditions of the original GRAPES model. This confirms the strong impact of the periodic model error on landfalling TC track forecasts. Besides, if the model error used to rectify the model is obtained from an examination of additional TCs, the forecasting capabilities of the corresponding rectified model will be improved.

关键词： GRAPES error diagnosis model uncertainty predictability tropical cyclone

Radical Cation Diels-Alder Reactions of Non-Conjugated Alkenes as Dienophiles by Electrocatalysis

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Chinese Journal of Chemistry 2019年第6期37卷 561-564页

作者： Atsushi Ozaki Yusuke yamaguchi Yohei Okada Kazuhiro Chiba Department of Applied Biological Science Tokyo University of Agriculture and Technology3-5-8 Saiwai-choFuchuTokyo 183-8509Japan Department of Chemical Engineering Tokyo University of Agriculture and Technology2-24-16 Naka-choKoganeiTokyo 184-8588Japan

Radical cation Diels-Alder reactions provide a powerful method for the construction of six-membered ring systems between both electron-rich dienes and dienophiles. However, the most recent examples of this class have been limited to β-methylstyrenes as dienophiles;the use of non-conjugated alkenes remains challenging. The present study describes the serendipitous development of novel radical cation Diels-Alder reactions by electrocatalysis that use non-conjugated alkenes as dienophiles. The key to successful transformation involves highly substituted cyclohexenyl radical cations that are stable enough to be reduced by intermolecular single electron transfer.

关键词： radical cation Diels-Alder reaction non-conjugated alkene electrochemistry single electron transfer