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Application of HPC and big data in post-pandemic times

Earthquake Research Advances 2021年第3期1卷 21-28页

作者： Henry M.Tufo David A.Yuen Gabriele Morra Matthew G.Knepley Bei Zhang Shi Chen Dept.of Computer Science University of ColoradoBoulderUSA Dept.of Applied Physics and Applied Mathematics Columbia UniversityUSA college of Information Science and Engineering and college of Marine Geosciences Ocean University of ChinaQingdaoChina Dept.of Physics and Earth Sciences University of LouisianaLafayetteLouisianaUSA Dept.of Computer Science and Engineering State University of New YorkBuffaloUSA Institute of Geophysics China Earthquake AdministrationBeijingChina Beijing Baijiatuan Earth Science National Observation and Research StationBeijingChina

We lay out the ramifications of the 2020 pandemic for all people in geosciences,especially the young,and argue for significant changes on training and career *** focus primarily on its devastating impact in USA and compare with that in other countries especially *** review the potential effect for the next four years or so on the aspirations of an academic career versus more realistic career *** urge people in mid-career about the need to reassess previous *** stress the need for students or researchers to acquire technical skills in high-performance computing(HPC),data analytics,artificial intelligence,and/or visualization along with a broad set of technical skills in applied computer science and *** give advice about hot prospects in several areas that have great potential for advancement in the coming decade,such as visualization,deep learning,quantum computing and information,and cloud computing,all of which lie within the aegis of *** forecast is that the pandemic will significantly reshape the job landscape and career paths for both young and established researchers and we discuss bluntly the dire situation facing junior people in geosciences in the aftermath of the pandemic around the world until 2024.

关键词： Geophysics High-performance computing Higher education Post-pandemic era

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Genetic characteristics of H1N1 influenza virus outbreak in China in early 2023

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Virologica Sinica 2024年第3期39卷 520-523页

作者： Xuanxuan Li Zefeng Dong Jiaming Li Chuanran Dou Deyu Tian Zhenghai Ma Wenjun Liu George F.Gao Yuhai Bi college of Life Science and Technology Xinjiang UniversityUrumchi830046China CAS Key Laboratory of Pathogen Microbiology and Immunology Institute of MicrobiologyCenter for Influenza Research and Early-warning(CASCIRE)CAS-TWAS Center of Excellence for Emerging Infectious Diseases(CEEID)Chinese Academy of SciencesBeijing100101China Suzhou Center for Disease Control and Prevention Suzhou215004China lafayette college EastonPA 18042USA University of Chinese Academy of Sciences Beijing100049China D.H.Chen School of Universal Health Zhejiang UniversityHangzhou 310058China

Dear Editor,Influenza A virus(IAV)exhibits rapid mutability and antigenic *** the 20th century,IAV has caused at least four pandemics(Yang et al.,2022).Presently,seasonal H_(3)N_(2)and H1N1 are the prevailing human-adaptive IAV subvariants responsible for human *** implementation of public health interventions since the commencement of the COVID-19 pandemic has effectively curtailed global influenza circulation(Olsen et al.,2021).Following the downregulation of the prevention and control strategies against COVID-19,global influenza activity is showing a recovery.

关键词： influenza prevention H1N1

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Single-Molecule Characterization of van der Waals Contact Between Alkane and Gold

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CCS Chemistry 2024年第11期6卷 2704-2712页

作者： Hongyu Ju Jinying Wang Wangping Liu Jie Hao Mengmeng Li Yanxia Xu Boyu Wang Suhang He Kunrong Mei Andrew C.-H.Sue Keqiu Chen Chuancheng Jia Xuefeng Guo School of Pharmaceutical Science and Technology Tianjin UniversityTianjin 300072 Center of Single-Molecule Sciences Institute of Modern OpticsFrontiers Science Center for New Organic MatterTianjin Key Laboratory of Microscale Optical Information Science and TechnologyCollege of Electronic Information and Optical EngineeringNankai UniversityTianjin 300350 Network for Computational Nanotechnology Purdue UniversityWest LafayetteIndiana 47907 Department of Applied Physics School of Physics and ElectronicsHunan UniversityChangsha 410082 college of Chemistry and Chemical Engineering Xiamen UniversityXiamen 361005 Beijing National Laboratory for Molecular Sciences National Biomedical Imaging CenterCollege of Chemistry and Molecular EngineeringPeking UniversityBeijing 100871

Van der Waals(vdW)contact,dominated by weak but ubiquitous vdW interactions,plays a significant role in diverse fields such as supramolecular chemistry,nanotechnology,and surface *** characterization of vdW contact at the single-molecule level remains ***,we combine the scanning tunneling microscope break junction technique with first-principles calculations to study the mechanical and electrical characteristics of the alkane/Au vdW contact in an in-situ solution *** step-like conductance plateaus indicate a gradual desorption of alkyl chains in units of two methylene groups under force *** distinct charge transport channels,through the shortest C–H/Au pathway and the entire adsorbed alkyl chain,are ***,we discover that a higher electric field leads to increased conductance and stronger bonding of the alkane/Au vdW *** results unveil the intrinsic properties of vdW contact at the molecular and even atomic levels,which are crucial for exploring noncovalent interactions and advancing molecular sciences.

关键词： alkane van der Waals contact singlemolecule electronics scanning tunneling microscope break junction electric field

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Two-dimensional atomically thin Pt layers on MXenes: The role of electronic effects during catalytic dehydrogenation of ethane and propane

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Nano Research 2024年第3期17卷 1251-1258页

作者： Zhe Li Tobias K.Misicko Fan Yang Xiaopeng Liu Zhenwei Wu Xiaoyang Gao Tao Ma Jeffrey T.Miller Daniela S.Mainardi Collin D.Wick Zhenhua Zeng Yang Xiao Yue Wu Department of Chemical and Biological Engineering Iowa State University618 Bissell RoadAmesIA 50011USA Institute for Micromanufacturing Louisiana Tech University505 Tech DriveRustonLA 71272USA Davidson School of Chemical Engineering Purdue University480 Stadium Mall DriveWest LafayetteIN 47907USA Michigan Center for Materials Characterization University of Michigan2800 Plymouth RdAnn Arbor MI 48109USA college of Engineering and Science Louisiana Tech UniversityRustonLA 71272USA

Atomically thin Pt nanolayers were synthesized on the surface of Mo2TiC2 MXenes and used for the catalytic dehydrogenation of ethane and propane into ethylene and propylene,two important chemicals for the petrochemical *** compared with Pt nanoparticles,the atomically thin Pt nanolayer catalyst showed superior coke-resistance(no deactivation for 24 h),high activity(turnover frequencies(TOFs)of 0.4–1.2 s^(-1)),and selectivity(>95%)toward ethylene and *** unique Pt nanolayer has a similar geometric surface to Pt nanoparticles,enabling the investigations of the electronic effect on the catalytic performance,where the geometric effect is *** is found that the electronic effect plays a critical role in dehydrogenative product selectivity and catalyst *** metal–support interaction is found dependent on the substrate and metal components,providing wide opportunities to explore high-performance MXene-supported metallic catalysts.

关键词： MXene catalysis alkane dehydrogenation nanolayers

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The H3K9me2-binding protein AGDP3 limits DNA methylation and transcriptional gene silencing in Arabidopsis

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Journal of Integrative Plant Biology 2022年第12期64卷 2385-2395页

作者： Xuelin Zhou Mengwei Wei Wenfeng Nie Yue Xi Li Peng Qijie Zheng Kai Tang Viswanathan Satheesh Yuhua Wang Jinyan Luo Xuan Du Rui Liu Zhenlin Yang Honggui La Yingli Zhong Yu Yang Jian-Kang Zhu Jiamu Du Mingguang Lei Shanghai Center for Plant Stress Biology CAS Center for Excellence in Molecular Plant SciencesChinese Academy of SciencesShanghai 201602China University of Chinese Academy of Sciences Beijing 100049China Department of Horticulture College of Horticulture and Plant ProtectionYangzhou UniversityYangzhou 225009China Department of Horticulture&Landscape Architecture Purdue UniversityWest LafayetteIdiana47906USA Key Laboratory of Molecular Design for Plant Cell Factory of Guangdong Higher Education Institutes Institute of Plant and Food ScienceSchool of Life SciencesSouthern University of Science and TechnologyShenzhen 518055China college of Bioscience and Biotechnology Hunan Agricultural UniversityChangsha 410128China

DNA methylation,a conserved epigenetic mark,is critical for tuning temporal and spatial gene *** Arabidopsis thaliana DNA glycosylase/lyase REPRESSOR OF SILENCING 1(ROS1)initiates active DNA demethylation and is required to prevent DNA hypermethylation at thousands of genomic ***,how ROS1 is recruited to specific loci is not well ***,we report the discovery of Arabidopsis AGENET Domain Containing Protein 3(AGDP3)as a cellular factor that is required to prevent gene silencing and DNA ***3 binds to H3K9me2 marks in its target DNA via its AGD12 *** of the crystal structure of the AGD12 cassette of AGDP3 in complex with an H3K9me2 peptide revealed that dimethylated H3 K9 and unmodified H3 K4 are specifically anchored into two different surface pockets.A histidine residue located in the methyllysine binding aromatic cage provides AGDP3 with pH-dependent H3K9me2 binding *** results uncover a molecular mechanism for the regulation of DNA demethylation by the gene silencing mark H3K9me2.

关键词： AGDP3 DNA demethylation epigenetics H3K9me2 ROS1

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Local vibrations and lift performance of low Reynolds number airfoil

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Propulsion and Power Research 2017年第2期6卷 79-90页

作者： Tariq Amin Khan Wei Li Jiazhong Zhang Tom I-P.Shih Department of Energy Engineering.Zhejiang University HangzhouZhejiang 310027China School of Energy and Power Engineering Xi’an Jiaotong UniversityXi’anShaanxi 710049China School of Aeronautics and Astronautics Purdue UniversityWest LafayetteIN 47907USA Co-innovation Center for Advanced Aero-Engine College of Energy EngineeringZhejiang UniversityHangzhouZhejia 310027 China

The 2D incompressible Navier-Stokes equations arc solved based on the finite Flexible structure;Airfoil;Lock-in phenomenon;Lift coefficient;volume method and dynamic mesh technique is used to carry out partial fluid structure *** local flexible structure(hereinafter termed as flexible structure)vibrates in a single mode located on the upper surface of the *** Influence of vibration frequency and amplitude are examined and the corresponding fluid flow characteristics are investigated Computational fluid dynamics(CFD)which add complexity to the inherent problem in unsteady *** study is conducted for flow over NACA0012 airfoil at 600≤Re≤3000 at a low angle of *** of flexible structure induces a secondary vortex which modifies the pressure distribution and lift performance of the *** some moderate vibration amplitude,frequency synchronization frequency of rigid *** and shedding of vortices corresponding to the deformation of flexible structure depends on the Reynolds *** the case of Re≤1000,the deformation of flexible structure is considered in-phase with the vortex shedding i.e.,increasing maximum lift is linked with the positive deformation of flexible *** Re=1500 a phase shift of about 1/π exists while they are out-of-phase at Re>***,the oscillation amplitude of lift coefficient increases with increasing vibration amplitude for Re£1500 while it decreases with increasing vibration amplitude for Re>*** a result of frequency lock-in,the average lift coefficient is increased with increasing vibration amplitude for all investigated Reynolds numbers(Re).The maximum increase in the average liftcoefficient is 19.72% within the range of investigated parameters.

关键词： Flexible structure Airfoil Lock-in phenomenon Lift coefficient Computational fluid dynamics(CFD)

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An Arabidopsis ABC Transporter Mediates Phosphate Deficiency-Induced Remodeling of Root Architecture by Modulating Iron Homeostasis in Roots

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Molecular Plant 2017年第2期10卷 244-259页

作者： Jinsong Dong Miguel A. PiSeros Xiaoxuan Li Haibing Yang Yu Liu Angus S. Murphy Leon V. Kochian Dong Liu Ministry of Education Key Laboratory of Bioinformatics Center for Plant Biology School of Life Sciences Tsinghua University Beijing 100084 China USDA-ARS Robert Holley Center for Agriculture and Health Cornell University ithaca NY 14580 USA Department of Horticulture Purdue University West Lafayette IN 47907-2010 USA State Key Laboratory of Plant Physiology and Biochemistry College of Life Science Zhejiang University Hangzhou 310058 China Department of Plant Science and Landscape Architecture University of Maryland College Park MD 20742 USA GIobal Institute for Food Security University of Saskatchewan Saskatoon S7N 4J8 Canada

The remodeling of root architecture is a major developmental response of plants to phosphate （Pi） deficiency and is thought to enhance a plant＇s ability to forage for the available Pi in topsoil. The underlying mechanism controlling this response, however, is poorly understood. In this study, we identified an Arabidopsis mutant, hps 10 （hypersensitive to Pi starvation 10）, which is morphologically normal under Pi sufficient condition but shows increased inhibition of primary root growth and enhanced production of lateral roots under Pi defi- ciency, hpslO is a previously identified allele （als3-3） of the ALUMINUM SENSITIVE3 （ALS3） gene, which is involved in plant tolerance to aluminum toxicity. Our results show that ALS3 and its interacting protein AtSTAR1 form an ABC transporter complex in the tonoplast. This protein complex mediates a highly electro- genic transport in Xenopus oocytes. Under Pi deficiency, als3 accumulates higher levels of Fe3＋ in its roots than the wild type does. In Arabidopsis, LPR1 （LOW PHOSPHATE ROOT1） and LPR2 encode ferroxidases, which when mutated, reduce Fe3＋ accumulation in roots and cause root growth to be insensitive to Pi defi- ciency. Here, we provide compelling evidence showing that ALS3 cooperates with LPR1/2 to regulate Pi deficiency-induced remodeling of root architecture by modulating Fe homeostasis in roots.

关键词： phosphate deficiency root architecture iron homeostasis ABC transporter ALUMINUM SENSI-TIVE3 AtS TAR1

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Germination and early seedling growth of Pinus densata ***

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Journal of Forestry Research 2016年第2期27卷 283-294页

作者： Yulan Xu Nianhui Cai Bin He Ruili Zhang Wei Zhao Jianfeng Mao Anan Duan Yue Li Keith Woeste Key Laboratory for Forest Resources Conservation and Usein the Southwest Mountains of China College of ForestrySouthwest Forestry UniversityKunming 650224China The State Engineering Laboratory for Tree Breeding Collegeof Biological Science and BiotechnologyBeijing Forestry UniversityBeijing 100083China State Key Laboratory of Systematic and Evolutionary Botany Institute of BotanyChinese Academy of ScienceBeijing 100093China USDA Forest Service Hardwood Tree Improvement and Regeneration Center at Purdue University West LafayetteIN 47906USA

We studied seed germination and early seedling growth of Pinus densata to explore the range of variability within the species and to inform afforestation practices. Phenotypes were evaluated at a forest tree nursery under conditions that support Pinus yunnanensis, one of the presumed parental species of P. densata. Seeds were col- lected from 20 open-pollinated trees within each of eight autochthonous populations representing the natural distri- bution of P. densata in China to assess variation in ger- mination traits and early seedling growth, and to examine the relationships among these traits. Results showed that seeds from all populations germinated and seedlings established successfully. There were significant differences among populations in 13 of 14 traits evaluated. Seed germination and early seedling growth were strongly related to seed size and seed weight. Bigger seeds germi- nated earlier and faster than small seeds, and seedling size was positively correlated with seed size. Some germination traits were strongly and significantly correlated with cli- matic variables associated with the provenance of the studied populations. Based on these observations, we conclude there were large, significant, and biologically important differences among P. densata populations in seed germination and seedling growth traits. The observed variability probably reflects a high degree of adaptive dif- ferentiation among populations that is likely to be relevant for future afforestation.

关键词： Afforestation Conifer Gaoshan pine Provenance Seed germination Seed size Seedling vigor

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Quantifying relations between altered hydrology and fish community responses for streams in Minnesota

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Ecological Processes 2022年第1期11卷 536-560页

作者： Jeffrey R.Ziegeweid Gregory D.Johnson Aliesha L.Krall Kara Fitzpatrick Sara B.Levin U.S.Geological Survey California Water Science Center6000 J StPlacer HallSacramentoCA 85819USA U.S.Geological Survey Upper Midwest Water Science Center2280 Woodale DrMounds ViewMN 55112USA Minnesota Pollution Control Agency 520 Lafayette RdSt.PaulMN 55155USA Minnesota Pollution Control Agency 7678 College RoadSuite 105BaxterMN 56425USA

Background:Altered hydrology is a stressor on aquatic life,but quantitative relations between specific aspects of streamflow alteration and biological responses have not been developed on a statewide scale in *** sub-sets regression analysis was used to develop linear regression models that quantify relations among five categories of hydrologic metrics(i.e.,duration,frequency,magnitude,rate-of-change,and timing)computed from streamgage records and six categories of biological metrics(i.e.,composition,habitat,life history,reproductive,tolerance,trophic)computed from fish-community samples,as well as fish-based indices of biotic integrity(FIBI)scores and FIBI scores normalized to an impairment threshold of the corresponding stream class(FIBI_BCG4).Relations between hydrology and fish community responses were examined using three hydrologic datasets that represented periods of record,long-term changes,and short-term changes to flow regimes in streams of ***:Regression models demonstrated significant relations between hydrologic explanatory metrics and fish-based biological response metrics,and the five regression models with the strongest linear relations explained over 70%of the variability in the biological metric using three hydrologic metrics as explanatory ***-based biological metrics demonstrated the strongest linear relations to hydrologic *** most commonly used hydrologic metrics were related to bankfull flows and aspects of flow ***:Final regression models represent paired streamgage records and biological samples throughout the State of Minnesota and encompass differences in stream orders,hydrologic landscape units,and watershed *** methods can support evaluations of stream fish communities and facilitate targeted efforts to improve the health of fish *** also can be applied to locations outside of Minnesota with continuous streamgage data and fish-community sampl

关键词： EflowStats Best subset regression Altered hydrology Fish community Indices of biotic integrity Ecological flows

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Alien woody plant invasions in natural forests across China

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Journal of Plant Ecology 2021年第5期14卷 749-756页

作者： Yupin Wang Songlin Fei Zhiyao Tang Yuanfeng Sun Guoping Chen Xiangping Wang Shaopeng Wang Jingyun Fang Department of Ecology College of Urban and Environmental SciencesPeking UniversityBeijing 100871China Department of Forestry and Natural Resources Purdue UniversityWest LafayetteIN 47907USA Department of Forest Ecology School of Ecology and Nature ConservationBeijing Forestry UniversityBeijing 100083China

Aims Alien plant invasion has become a major global environmental issue,causing severe economic and ecological *** invasions have been reported in some regions of ***,most studies have been conducted at local and provincial levels,and the overall degree of invasion in natural forests across China remains ***,we explored the biogeographic patterns and their environmental and socioeconomic controls of the invaded alien woody plants in natural forests across the *** We compiled the data of 3573 natural forest plots across the China's Mainland and mapped spatial distribution of alien woody plant *** also used logistic regression models to identify the key socioeconomic and environmental factors that were associated with the observed invasion *** Findings We found that only 271 plots among 3573 natural forest plots were invaded by alien woody plants,accounting for 7.58%of all *** all 2825 woody plant species across all plots surveyed,only 5 alien species(0.177%)were *** human activities and climate factors were related to the observed invasion *** China’s natural forests are mostly located in remote mountainous areas with limited human disturbance,alien woody plant invasions are less than those reported in North America and ***,with the development of transportation and increased economic activities in mountainous areas,more invasions by alien plants may be expected in the ***,proactive management and policy making are desired to prevent or slow down the invasion processes.

关键词： alien woody plant invasion China's natural forest field data human disturbance invasion patterns

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