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A dual-function selection system enables positive selection of multigene CRISPR mutants and negative selection of Cas9-free progeny in Arabidopsis

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aBIOTECH 2024年第2期5卷 140-150页

作者： feng-Zhu Wang Ying bao Zhenxiang Li Xiangyu Xiong Jian-feng Li State Key Laboratory of Biocontrol Guangdong Provincial Key Laboratory of Plant ResourcesSchool of Life SciencesSun Yat-sen UniversityGuangzhou 510275China

The CRISPR/Cas9 technology revolutionizes targeted gene knockout in diverse organisms including ***,screening edited alleles,particularly those with multiplex editing,from herbicide-or antibiotic-resistant transgenic plants and segregating out the Cas9 transgene represent two laborious *** solutions to facilitate these processes rely on different selection ***,by taking advantage of the opposite functions of a D-amino acid oxidase(DAO)in detoxifying D-serine and in metabolizing non-toxic D-valine to a cytotoxic product,we develop a DAO-based selection system that simultaneously enables the enrichment of multigene edited alleles and elimination of Cas9-containing progeny in Arabidopsis *** five DAOs tested in Escherichia coli,the one encoded by Trigonopsis variabilis(TvDAO)could confer slightly stronger D-serine resistance than other *** expression of TvDAO in Arabidopsis allowed a clear distinction between transgenic and nontransgenic plants in both D-serine-conditioned positive selection and D-valine-conditioned negative *** a proof of concept,we combined CRISPR-induced single-strand annealing repair of a dead TvDAO with D-serine-based positive selection to help identify transgenic plants with multiplex editing,where D-serine-resistant plants exhibited considerably higher co-editing frequencies at three endogenous target genes than those selected by ***,D-valine-based negative selection successfully removed Cas9 and TvDAO transgenes from the survival offspring carrying inherited ***,this work provides a novel strategy to ease CRISPR mutant identification and Cas9 transgene elimination using a single selection marker,which promises more efficient and simplified multiplex CRISPR editing in plants.

关键词： CRISPR Genome editing D-amino acid oxidase Cas9-free Selection marker

Difluoromethyl phenoxathiinium salt: A new general and versatile difluoromethylating reagent with divergent ·CF_(2)H, CF_(2)H^(+), and :CF_(2) reactivities

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Science China Chemistry 2024年第3期67卷 953-962页

作者： Yuan-Qing Gu Hong-Xin Long dan-dan Zhang Mei-feng Ruan Guo-Kai Liu School of Pharmacy Shenzhen University Medical SchoolShenzhen UniversityShenzhen 518055China

Development of practical and versatile electrophilic difluoromethylating reagent is still a grand challenge so far due to its inherent instability or low ***,we report the design and synthesis of difluoromethyl phenoxathiinium tetrafluoroborate(PT-CF_(2)H^(+)BF_(4)^(-)) as a novel difluoromethylating reagent,which proves to be a bench-stable,general,powerful and versatile reagent with divergent·CF_(2)H,CF_(2)H^(+),and:CF_(2) *** use of this reagent,we demonstrated a vast array of difluoromethyl radical transfer reactions via diverse pathways involving photocatalyst-free visible-light induction,visible-light photoredox catalysis and visible-light mediation single electron transfer of EDA ***,the green and highly effective CF_(2)H^(+) and:CF_(2) transfer reactions were also readily accomplished.

关键词： difluoromethyl phenoxathiinium salt versatile difluoromethylating reagent difluoromethyl radical difluoromthyl cation difluorocarbene

An adaptive finite-difference method for seismic traveltime modeling based on 3D eikonal equation

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Petroleum Science 2024年第1期21卷 195-205页

作者： bao-Ping Qiao Qing-Qing Li Wei-Guang He dan Zhao Qu-Bo Wu CNNC Beijing Research Institute of Uranium Geology Beijing 100029China National Key Laboratory of Deep Oil and Gas China University of Petroleum(East China)Qingdao 266580ShangdongChina SINOPEC Geophysical Research Institute Nanjing211103JiangsuChina

3D eikonal equation is a partial differential equation for the calculation of first-arrival traveltimes and has been widely applied in many scopes such as ray tracing,source localization,reflection migration,seismic monitoring and tomographic *** recent years,many advanced methods have been developed to solve the 3D eikonal equation in heterogeneous ***,there are still challenges for the stable and accurate calculation of first-arrival traveltimes in 3D strongly inhomogeneous *** this paper,we propose an adaptive finite-difference(AFD)method to numerically solve the 3D eikonal *** novel method makes full use of the advantages of different local operators characterizing different seismic wave types to calculate factors and traveltimes,and then the most accurate factor and traveltime are adaptively selected for the convergent updating based on the Fermat *** with global fast sweeping describing seismic waves propagating along eight directions in 3D media,our novel method can achieve the robust calculation of first-arrival traveltimes with high precision at grid points either near source point or far away from source point even in a velocity model with large and sharp *** numerical examples show the good performance of the AFD method,which will be beneficial to many scientific applications.

关键词： 3D eikonal equation Accurate traveltimes Global fast sweeping 3D inhomogeneous media Adaptive finite-difference method

Freshwater fungi from karst landscapes in China and Thailand

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Fungal Diversity 2023年第2期119卷 1-212页

作者： Jing Yang Ling-Ling Liu EBGareth Jones Kevin D.Hyde Zuo-Yi Liu dan-feng bao Ning-Guo Liu Wen-Li Li Hong-Wei Shen Xian-Dong Yu Jian-Kui Liu School of Life Science and Technology Center for Informational BiologyUniversity of Electronic Science and Technology of ChinaChengdu 611731People’s Republic of China School of Science Center of Excellence in Fungal ResearchMae Fah Luang UniversityChiang Rai 57100Thailand Guizhou Key Laboratory of Agricultural Biotechnology Guizhou Academy of Agricultural SciencesGuiyang 550006People’s Republic of China Guizhou Institute of Soil and Fertilizer Guizhou Academy of Agricultural SciencesGuiyang 550006People’s Republic of China Department of Botany and Microbiology College of ScienceKing Saud UniversityRiyadh 11451Saudi Arabia Department of Entomology and Plant Pathology Faculty of AgricultureChiang Mai UniversityChiang Mai 50200Thailand Innovative Institute for Plant Health Zhongkai University of Agriculture and EngineeringGuangzhou 510225People’s Republic of China Faculty of Agriculture Natural Resources and EnvironmentNaresuan UniversityPhitsanulok 65000Thailand

Freshwater fungi comprises a highly diverse group of organisms occurring in freshwater habitats throughout the ***-ing a survey of freshwater fungi on submerged wood in streams and lakes,a wide range of sexual and asexual species were collected mainly from karst regions in China and *** inferences using partial gene regions of LSU,ITS,SSU,TEF1α,and RPB2 sequences revealed that most of these fungi belonged to Dothideomycetes and Sordariomycetes and a few were related to *** on the morphology and multi-gene phylogeny,we introduce four new genera,***,Neocirrenalia,Ocellisimilis and Uvarisporella,and 47 new species,*** chishuiensis,***,***,Actinocladium aquaticum,Annulatascus tratensis,Aquabispora setosa,Aqualignicola setosa,Aquimassario-sphaeria vermiformis,Ceratosphaeria flava,Chaetosphaeria polygonalis,Conlarium muriforme,Digitodesmium chishuiense,Ellisembia aquirostrata,Fuscosporella atrobrunnea,Halobyssothecium aquifusiforme,***,Hongkongmyces aquisetosus,Kirschsteiniothelia dushanensis,Monilochaetes alsophilae,Mycoenterolobium macrosporum,Myrmecridium splendidum,Neohelicascus griseoflavus,Neohelicomyces denticulatus,Neohelicosporium fluviatile,Neokalmusia aquib-runnea,Neomassariosphaeria aquimucosa,Neomyrmecridium naviculare,Neospadicoides biseptata,Ocellisimilis clavata,Ophioceras thailandense,Paragaeumannomyces aquaticus,Phialoturbella aquilunata,Pleurohelicosporium hyalinum,Pseudodactylaria denticulata,***,***,Pseudohalonectria aurantiaca,Rhamphoriopsis aquimi-crospora,Setoseptoria bambusae,Shrungabeeja fluviatilis,Sporidesmium tratense,***,Sporoschisma atroviride,Stanjehughesia aquatica,Thysanorea amniculi,Uvarisporella aquatica and Xylolentia aseptata,with an illustrated account,discussion of their taxonomic placement and comparison with morphological similar *** new combinations are introduced,*** grandispora(≡Boerlagiomyc

关键词： 58 new taxa Asexual morph Multi-gene Phylogeny Sexual morph Taxonomy

Constructal design of printed circuit recuperator for S-CO_(2)cycle via multi-objective optimization algorithm

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Science China(Technological Sciences) 2024年第1期67卷 285-294页

作者： dan ZhiSong feng HuiJun CHEN LinGen LIAO NaiBing GE YanLin Institute of Thermal Science and Power Engineering Wuhan Institute of TechnologyWuhan 430205China College of Power Engineering Naval University of EngineeringWuhan 430033China Hubei Provincial Engineering Technology Research Center of Green Chemical Equipment Wuhan 430205China School of Mechanical&Electrical Engineering Wuhan Institute of TechnologyWuhan 430205China AECC Hunan Aviation Powerplant Research Institute Zhuzhou 412002China

Based on a constructal theory,the structure design of a printed circuit recuperator with a semicircular heat transfer channel for supercritical CO_(2)cycle is carried ***,a complex function composed of weighted sum of the reciprocal of total heat transfer rate and total pumping power consumption is regarded as an optimization objective,and total volumes of the recuperator and heat transfer channel are regarded as *** optimal heat transfer channel radius and minimum complex function of the recuperator are *** turns out that heat transfer rate,pumping power consumption,and complex function under the optimal construct of recuperator are reduced by 15.10%,82.44%,and 32.33%,*** exists the optimal single plate channel number which results in the double minimum complex ***,for the purpose of minimizing the reciprocal of heat transfer rate and pumping power consumption,NSGA-II algorithm is used to achieve multi-objective optimization,and the minimum deviation index derived by the decision-making methods is 0.076,which can be taken as multi-objective optimal design scheme for printed circuit recuperator with semicircular heat transfer *** findings presented here can serve as theoretical recommendations for the structure design of printed circuit recuperator.

关键词： constructal theory supercritical CO_(2)cycle printed circuit heat exchanger heat transfer rate pumping power consumption multi-objective optimization

Heteroepitaxial growth of Au@Pd core–shell nanocrystals with intrinsic chiral surfaces for enantiomeric recognition

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Rare Metals 2024年第1期43卷 225-235页

作者： feng-Xia Wu feng-Hua Li Xia-Li Lv Qi-Xian Zhang Guo-bao Xu Wen-Xin Niu State Key Laboratory of Electroanalytical Chemistry Changchun Institute of Applied ChemistryChinese Academy of SciencesChangchun 130022China Shaoxing Institute of Technology Shanghai UniversityShaoxing 312000China University of Science and Technology of China Hefei 230026China School of Materials Science and Engineering Shanghai UniversityShanghai 200436China Zhejiang Institute of Advanced Materials Shanghai UniversityJiashan 314113China University of Chinese Academy of Sciences Beijing 100039China

Noble metal surfaces with intrinsic chirality serve as an ideal candidate for investigating enantioselective chemistry due to their superior chemical durability and high catalytic ***,significant advance has been made in synthesizing metal nanocrystals with intrinsic ***,the majority reports are limited to ***,through a heteroepitaxial growth strategy,the synthesis of metal nanocrystals with intrinsic chirality to palladium was extended for the first time and their application in enantioselective recognition was *** heteroepitaxial growth strategy allows for transferring the chirality of homochiral Au nanocrystals to Au@Pd core–shell *** employing the chiral Au@Pd nanocrystals as enantiomeric recognizing elements,a series of electrochemical sensors for chiral discrimination were *** optimal conditions,the peak potential between D-dihydroxyphenylalanine(D-DOPA)and L-dihydroxyphenylalanine(L-DOPA)is about 80 m V,and the peak current of D-DOPA is 2 times as much as that of L-DOPA,which enables the determination of the enantiomeric excess(EE,%)of ***,this report not only introduces a heteroepitaxial growth strategy to synthesize metal nanocrystals with intrinsic chirality,but also demonstrates the superior capability of integrating intrinsic chirality and catalytic properties into metal nanocrystals for chiral recognition.

关键词： Core–shell nanostructures Chirality transfer Electrochemical sensors Chiral recognition Chiroplasmonics

A disk I/O optimized system for concurrent graph processing jobs

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Frontiers of Computer Science 2024年第3期18卷 13-29页

作者： Xianghao XU Fang WANG Hong JIANG Yongli CHENG dan feng Peng FANG School of Computer Science and Engineering Nanjing University of Science and TechnologyNanjing 210094China Wuhan National Laboratory for Optoelectronics Huazhong University of Science and TechnologyWuhan 430074China Department of Computer Science&Engineering University of Texas at ArlingtonArlingtonTX 76019USA College of Computer and Data Science Fuzhou UniversityFuzhou 350108China Zhejiang Lab Hangzhou 311121China

In order to analyze and process the large graphs with high cost efficiency,researchers have developed a number of out-of-core graph processing systems in recent years based on just one commodity *** the other hand,with the rapidly growing need of analyzing graphs in the real-world,graph processing systems have to efficiently handle massive concurrent graph processing(CGP)***,due to the inherent design for single graph processing job,existing out-of-core graph processing systems usually incur unnecessary data accesses and severe competition of I/O bandwidth when handling the CGP *** this paper,we propose GraphCP,a disk I/O optimized out-of-core graph processing system that efficiently supports the processing of CGP *** proposes a benefit-aware sharing execution model to share the I/O access and processing of graph data among the CGP jobs and adaptively schedule the graph data loading based on the states of vertices,which efficiently overcomes above challenges faced by existing out-of-core graph processing ***,GraphCP adopts a dependency-based future-vertex updating model so as to reduce disk I/Os in the future *** addition,GraphCP organizes the graph data with a Source-Sorted Sub-Block graph representation for better processing capacity and I/O access *** evaluation results show that GraphCP is 20.5×and 8.9×faster than two out-of-core graph processing systems GridGraph and GraphZ,and 3.5×and 1.7×faster than two state-of-art concurrent graph processing systems Seraph and GraphSO.

关键词： graph processing disk I/O concurrent jobs

A hybrid contact approach for modeling soil-structure interaction using the material point method

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Journal of Rock Mechanics and Geotechnical Engineering 2024年第5期16卷 1864-1882页

作者： Qinyang Sang Yonglin Xiong Rongyue Zheng Xiaohua bao Guanlin Ye feng Zhang Key Laboratory of Impact and Safety Engineering Ministry of EducationSchool of Mechanical Engineering and MechanicsNingbo UniversityNingbo315211China Institute of Geotechnical Engineering Ningbo UniversityNingbo315211China College of Civil and Transportation Engineering Shenzhen UniversityShenzhen518060China Department of Civil Engineering Shanghai Jiao Tong UniversityShanghai200240China Department of Civil Engineering Nagoya Institute of TechnologyShowa-kuGokiso-choNagoya466-8555Japan

The grid-based multi-velocity field technique has become increasingly popular for simulating the Material Point Method(MPM)in contact ***,this traditional technique has some shortcomings,such as(1)early contact and contact penetration can occur when the contact conditions are unsuitable,and(2)the method is not available for contact problems involving rigid-nonrigid materials,which can cause numerical *** study presents a new hybrid contact approach for the MPM to address these limitations to simulate the soil and structure *** approach combines the advantages of point-point and point-segment contacts to implement contact detection,satisfying the impenetrability condition and smoothing the corner contact *** proposed approach is first validated through a disk test on an inclined ***,several typical cases,such as granular collapse,bearing capacity,and deformation of a flexible retaining wall,are simulated to demonstrate the robustness of the proposed approach compared with FEM or analytical ***,the proposed method is used to simulate the impact of sand flow on a deformable *** results show that the proposed contact approach can well describe the phenomenon of soil-structure interaction problems.

关键词： Material point method Soil-structure interaction Numerical simulation Contact algorithm

Boosting high-rate Li-ion storage properties by La(Ⅲ)ion doping in spinel(Co_(0.2)Cr_(0.2)Fe_(0.2)Mn_(0.2)Ni_(0.2))_(3)O_(4)high-entropy oxide anode

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Journal of Advanced Ceramics 2024年第6期13卷 769-779页

作者： Shijie Chen Mengfan bao Yanggang Jia Pengpeng Wang dan Wei Yuhuan Guo Jie Tan Aiqin Mao Advanced Ceramics Research Center School of Materials Science and EngineeringAnhui University of TechnologyMa’anshan 243032China Key Laboratory of Green Fabrication and Surface Technology of Advanced Metal Materials(Anhui University of Technology) Ministry of EducationMa’anshan 243032China

The present work aims to create lattice distortion and optimize the surface oxygen vacancy(OV)concentration in a model spinel(Co_(0.2)Cr_(0.2)Fe_(0.2)Mn_(0.2)Ni_(0.2))_(3)O_(4)high-entropy oxide(HEO)through a heteroatom La^(3+)doping *** demonstrated,La^(3+)with a large radius can be doped successfully into the spinel lattice of(Co_(0.2)Cr_(0.2)Fe_(0.2)Mn_(0.2)Ni_(0.2))_(3)O_(4),thereby not only causing lattice distortion to increase oxygen vacancies but also refining crystalline grains and improving the specific *** with the(Co_(0.2)Cr_(0.2)Fe_(0.2)Mn_(0.2)Ni_(0.2))_(3)O_(4)anode,the(La0.01CoCrFeMnNi)3/5.01O4 anode with moderate doping exhibits excellent cycling performance(1228 mAh·g^(−1)after 400 cycles at 0.2 A·g^(−1))and yields an increase of 75%rate capability at 3 A·g^(−1)(420 mAh·g^(−1)at 3 A·g^(−1)).The desirable kinetic transport of electrons and diffusion of Li+within the moderately La^(3+)-doped anode and the synergistic interfacial pseudocapacitive behavior satisfy the redox reaction at a high rate,thus increasing rate capability.

关键词： lithium-ion battery(LIB) anode lattice distortion high-entropy oxide(HEO) high-rate performance La^(3+)doping oxygen vacancy(OV)