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High-quality genome assemblies for two Australimusa bananas(Musa spp.)and insights into regulatory mechanisms of superior fiber properties

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Plant Communications 2024年第1期5卷 245-261页

作者： Run Zhou Shuo Wang Ni Zhan Weidi He Guiming Deng Tongxin Dou Xi-Tong Zhu Wen-Zhao Xie Yu-Yu Zheng Chunhua Hu Fangcheng Bi Huijun Gao Tao Dong Siwen Liu Chunyu Li Qiaosong Yang Lingqiang Wang jia-ming song jiangbo Dang Qigao Guo Ganjun Yi Ling-Ling Chen Ou Sheng Institute of Fruit Tree Research Guangdong Academy of Agricultural SciencesKey Laboratory of South Subtropical Fruit Biology and Genetic Resource UtilizationMinistry of Agriculture and Rural AffairsGuangdong Provincial Key Laboratory of Tropical and Subtropical Fruit Tree ResearchGuangzhou 510640China College of Informatics Huazhong Agricultural UniversityWuhan 430070China State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources College of Life Science and TechnologyGuangxi UniversityNanning 530004China College of Horticulture and Landscape Architecture Southwest UniversityChongqing 400715China

Bananas(Musa spp.)are monocotyledonous plants with high genetic diversity in the Musaceae family that are cultivated mainly in tropical and subtropical *** fruits are a popular food,and the plants themselves have diverse *** genetic groups(genomes)are thought to have contributed to current banana cultivars:Musa acuminata(A genome),Musa balbisiana(B genome),Musa schizocarpa(S genome),and species of the Australimusa section(T genome).However,the T genome has not been effectively ***,we present the high-quality TT genomes of two representative accessions,Abaca(Musa textilis),with high-quality naturalfiber,and Utafun(Musa troglodytarum,Fe’i group),with abundant *** the Abaca and Utafun assemblies comprise 10 pseudochromosomes,and their total genome sizes are 613 Mb and 619 Mb,*** genome analysis revealed that the larger size of the T genome is likely attributable to rapid expansion and slow removal of *** with those of Musa AA or BB accessions or sisal(Agava sisalana),Abacafibers exhibit superior mechanical properties,mainly because of their thicker cell walls with a higher content of cellulose,lignin,and *** of MusaCesA cellulose synthesis genes peaks earlier in Abaca than in AA or BB accessions during plant development,potentially leading to earlier cellulose accumulation during secondary cell wall *** Abaca-specific expressed gene MusaMYB26,which is directly regulated by MusaMYB61,may be an important regulator that promotes precocious expression of secondary cell wall ***,MusaWRKY2 and MusaNAC68,which appear to be involved in regulating expression of MusaLAC and MusaCAD,may at least partially explain the high accumulation of lignin in *** work contributes to a better understanding of banana domestica-tion and the diverse genetic resources in the Musaceae family,thus providing resources for Musa genetic improvement.

关键词： Australimusa bananas T genome Musaceae evolution structural variations fiber

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Two haplotype-resolved genome assemblies for AAB allotriploid bananas provide insights into banana subgenome asymmetric evolution and Fusarium wilt control

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Plant Communications 2024年第2期5卷 243-260页

作者： Wen-Zhao Xie Yu-Yu Zheng Weidi He Fangcheng Bi Yaoyao Li Tongxin Dou Run Zhou Yi-Xiong Guo Guiming Deng Wenhui Zhang Min-Hui Yuan Pablo Sanz-Jimenez Xi-Tong Zhu Xin-Dong Xu Zu-Wen Zhou Zhi-Wei Zhou jia-Wu Feng Siwen Liu Chunyu Li Qiaosong Yang Chunhua Hu Huijun Gao Tao Dong jiangbo Dang Qigao Guo Wenguo Cai jianwei Zhang Ganjun Yi jia-ming song Ou Sheng Ling-Ling Chen Institute of Fruit Tree Research Guangdong Academy of Agricultural SciencesKey Laboratory of South Subtropical Fruit Biology and Genetic Resource UtilizationMinistry of Agriculture and Rural AffairsGuangdong Provincial Key Laboratory of Tropical and Subtropical Fruit Tree ResearchGuangzhou 510640China College of Informatics Huazhong Agricultural UniversityWuhan 430070China State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources College of Life Science and TechnologyGuangxi UniversityNanning 530004China College of Horticulture and Landscape Architecture Southwest UniversityChongqing 400715China

Bananas(Musa spp.)are one of the world’s most important fruit crops and play a vital role in food security for many developing *** banana cultivars are triploids derived from inter-and intraspecific hybrid-izations between the wild diploid ancestor species Musa acuminate(AA)and ***(BB).We report two haplotype-resolved genome assemblies of the representative AAB-cultivated types,Plantain and Silk,and precisely characterize ancestral contributions by examining ancestry mosaics across the *** asymmetric evolution is observed in their subgenomes,which can be linked to frequent homol-ogous exchange *** reveal the genetic makeup of triploid banana cultivars and verify that subge-nome B is a rich source of disease resistance *** 58.5%and 59.4%of Plantain and Silk genes,respectively,are present in all three haplotypes,with>50%of genes being differentially expressed alleles in different *** observed that the number of upregulated genes in Plantain is significantly higher than that in Silk at one-week post-inoculation with Fusarium wilt tropical race 4(Foc TR4),which con-firms that Plantain can initiate defense responses faster than ***,we compared genomic and transcriptomic differences among the genes related to carotenoid synthesis and starch metabolism between Plantain and *** study provides resources for better understanding the genomic architecture of culti-vated bananas and has important implications for Musa genetics and breeding.

关键词： bananas Plantain Silk asymmetric evolution homologous exchange Fusarium wilt

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GenomeSyn:a bioinformatics tool for visualizing genome synteny and structural variations

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Journal of Genetics and Genomics 2022年第12期49卷 1174-1176页

作者： Zu-Wen Zhou Zhi-Guang Yu Xiao-ming Huang Jin-Shen Liu Yi-Xiong Guo Ling-Ling Chen jia-ming song State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources College of Life Science and TechnologyGuangxi UniversityNanningGuangxi 530004China College of Stomatology Guangxi Medical UniversityNanningGuangxi 530021China National Key Laboratory of Crop Genetic Improvement Huazhong Agricultural UniversityWuhanHubei 430070China

Advances in the next-generation and long-read sequencing technologies have promoted the development of genome-wide comparative genomics analysis,and constructing pangenomes and identifying structural variations(SVs)are becoming the frontier of *** genomics is of critical importance for determining the gene function and the evolutionary basis of traits.

关键词： traits Genome structural

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Rice Information GateWay： A Comprehensive Bioinformatics Platform for Indica Rice Genomes

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Molecular Plant 2018年第3期11卷 505-507页

作者： jia-ming,song Yang,Lei Cheng-Cheng,Shu Yuduan,Ding Feng,Xing Hao,Liu jia,Wang Weibo,Xie jianwei,Zhang Ling-Ling,Chen National Key Laboratory of Crop Genetic Improvement Huazhong Agricultural University Wuhan 430070 P. R. China Agricultural Bioinformatics Key Laboratory of Hubei Province College of Informatics Huazhong Agricultural University Wuhan 430070 China [∗]Corresponding author [∗∗]Corresponding author

Dear Editor,Oryza sativa subsp, indica and japonica are two subspecies of Asian cultivated rice, among which indica rice is much more widely grown and genetically diverse. Over the past years, the Rice Annotation Project Database （RAP-DB）（Ohyanagi et al., 2006） and Michigan State University Rice Genome Annotation Project （MSU-RGAP）（Ouyang et al., 2007） are two popular databases that have been developed to manage rice genomic and transcriptomic data based on the unified reference genome of japonica cultivar Nipponbare （International Rice Genome Sequencing Project, 2005）. Beijing Genomics Institute Rice Information System （BGI-RIS）（Zhao et ai., 2004） is an available resource for indica rice cultivar 93-11;

关键词： SEQUENCE RESOURCE DATABASE

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A multi-mechanism numerical simulation model for CO_(2)-EOR and storage in fractured shale oil reservoirs

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Petroleum Science 2024年第3期21卷 1814-1828页

作者： Yuan-Zheng Wang Ren-Yi Cao Zhi-Hao jia Bin-Yu Wang ming Ma Lin-song Cheng College of Petroleum Engineering China University of Petroleum(Beijing)Beijing102249China John&Willie Leone Department of Energy&Mineral Engineering The Pennsylvania State UniversityUniversity Park16802PA.USA

Under the policy background and advocacy of carbon capture,utilization,and storage(CCUS),CO_(2)-EOR has become a promising direction in the shale oil reservoir *** multi-scale pore structure distribution and fracture structure lead to complex multiphase flow,comprehensively considering multiple mechanisms is crucial for development and CO_(2) storage in fractured shale *** this paper,a multi-mechanism coupled model is developed by *** to the traditional Eclipse300 and MATLAB Reservoir Simulation Toolbox(MRST),this model considers the impact of pore structure on fluid phase behavior by the modified Peng—Robinson equation of state(PR-EOS),and the effect simultaneously radiate to Maxwell—Stefan(M—S)diffusion,stress sensitivity,the nano-confinement(NC)***,a modified embedded discrete fracture model(EDFM)is used to model the complex fractures,which optimizes connection types and half-transmissibility calculation approaches between non-neighboring connections(NNCs).The full implicit equation adopts the finite volume method(FVM)and Newton—Raphson iteration for discretization and *** model verification with the Eclipse300 and MRST is *** results show that the interaction between the mechanisms significantly affects the production performance and storage *** effect of molecular diffusion may be overestimated in oil-dominated(liquid-dominated)shale *** well spacing and injection gas rate are the most crucial factors affecting the production by sensitivity ***,the potential gas invasion risk is *** model provides a reliable theoretical basis for CO_(2)-EOR and sequestration in shale oil reservoirs.

关键词： CO_(2)-EOR CO_(2)storage Shale oil reservoir Complex fracture model Multiple mechanisms

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A Self-Healing Elastomer with Extremely High Toughness Achieved by Acylsemicarbazide Hydrogen Bonding and Cu^(2+)-Neocuproine Coordination Interactions

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Chinese Journal of Polymer Science 2024年第10期42卷 1425-1434,I0007页

作者： Xiao-ming An Yi-Ping Wang Tang-song Zhu Chong Xing Xu-Dong jia Qiu-Hong Zhang Key Laboratory of High Performance Polymer Material and Technology of MOE Department of Polymer Science and EngineeringSchool of Chemistry and Chemical EngineeringNanjing UniversityNanjing210093China State Key Laboratory of Coordination Chemistry Nanjing UniversityNanjing210093China

Elastomers with high mechanical toughness can guarantee their durability during service ***-healing ability,as well as recyclability,can also extend the life of materials and save the consuming cost of the *** efforts have been dedicated to promoting the mechanical toughness as well as the self-healing capability of elastomers at the same time,while it remains a challenge to balance the trade-off between the above properties in one *** we proposed a molecular design driven by dual interactions of acylsemicarbazide hydrogen bonding and Cu^(2+)-neocuproine coordination *** introducing the reversible multiple hydrogen bonds and strong coordination bonds,we successfully fabricated an extremely tough and self-healing *** elastomer can achieve an impressive top-notch toughness of 491 MJ/m^(3).Furthermore,it boasted rapid elastic restorability within 10 min and outstanding crack tolerance with high fracture energy(152.6kJ/m^(2)).Benefiting from the combination of dynamic interactions,the material was able to self-repair under 80℃conveniently and could be reprocessed to restore the exceptional mechanical properties.

关键词： Metal-ligand coordination Hydrogen bond Ultra-tough elastomer Self-healing

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Numerical analysis of the correlation between fluid dynamic modes and hydrodynamic noise in flows around a three-dimensional circular cylinder

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Journal of Hydrodynamics 2024年第1期36卷 119-129页

作者： jia-jia Qin ming-xin Zou Yuan Zhuang De-cheng Wan Computational Marine Hydrodynamics Lab(CMHL) School of Naval ArchitectureOcean and Civil EngineeringShanghai Jiao Tong UniversityShanghai200240China Wuhan Second Ship Design and Research Institute Wuhan430205China

The flow around a circular cylinder for Re=1000 is characterized by flow separation and Karman vortex *** typical flow features can be captured to study the correlation between fluid fields and sound *** this paper,the three-dimensional circular cylinder is taken as the research object,and the probes of surface fluctuating pressure and far field sound pressure are arranged every 10°.The directional diagram and the coherence of fluctuating pressure and sound pressure are *** relationship between the flow mode and hydrodynamic noise is studied by using dynamic mode decomposition(DMD).The characteristics of the dipole and quadrupole sound source term of a long span cylinder are *** results show that at the angles between 30°–120°and 190°–350°,the fluctuating pressure contributes more to the generation of dipole *** quadrupole sound source shows three-dimensional effects,which is more obvious in a cylinder with large spanwise length.

关键词： Pressure coherence dynamic mode decomposition flow-sound correlation circular cylinder

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Preparation and characterization of high-reactivity explosive-based nano-boron microspheres

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Particuology 2024年第10期93卷 125-136页

作者： Chen Dong Yi Wang Kanghui jia Dan song Xiaolan song Chongwei An School of Materials Science and Engineering North University of ChinaTaiyuan030051China Jinxi Group Shanxi jiangyang Chemical Co. Ltd.Taiyuan030051China China Ordnance Institute of Science and Technology Beijing100089China School of Environment and Safety Engineering North University of ChinaTaiyuan030051China

Boron nanoparticles,with their remarkably high gravimetric and volumetric calorific values,emerge as the most promising fuel in energetic ***,challenges such as susceptibility to oxidation,high ignition temperature,and low combustion efficiency have constrained their further *** this study,we fabricated high explosives based nano-boron microspheres with uniform size using the electrostatic spray method,in which the boron nanoparticles and high explosives(CL-20 or PETN)are closely bonded together by fluorinated polymer(F2602)and evenly *** results indicated that the microspheres exhibited high sphericity and showed an enhanced antioxidant *** addition of high-energy explosives not only reduced the thermal oxidation temperature of nano-boron powder within the microspheres but also significantly enhanced the pressurization ***,the microspheres with added high-energy explosives released more energy during the combustion *** to physically mixed samples,electrostatically sprayed microspheres with a uniform microstructure still exhibited higher ***,the design and synthesis of microspheres with controllable structures using the electrostatic spray method show promising application prospects.

关键词： Nano-boron CL-20 PETN Electrospraying Ignition and combustion

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Design of acceleration control schedule for adaptive cycle engine based on direct simulation model

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Chinese Journal of Aeronautics 2024年第6期37卷 307-318页

作者： Keran song Linyuan jia Yuchun CHEN Tian TAN School of Power and Energy Northwestern Polytechnical UniversityXi’an 710072China

To design the optimum acceleration control schedule for the Adaptive Cycle Engine(ACE)in the full flight envelope,this paper establishes a direct simulation model of the ACE transient *** this model,geometric parameters are used to replace the component state *** corresponding relationship between geometric parameters and component state parameters is determined by sensitivity *** geometric variables are controlled when the geometric adjustment speed exceeds the limit,and at the same time the corresponding component state parameters are *** gradient optimization algorism is used to optimize the ground acceleration process of ACE,and the control schedule in terms of operating point of compression components and corrected acceleration rate is used as the full-envelope acceleration control schedule based on the similarity *** acceleration control schedules of the triple-bypass mode and the double-bypass mode are designed in this *** acceleration processes under various flight conditions are simulated using the acceleration control *** with the acceleration process with the linear geometric adjustment schedule,the acceleration performance of ACE is improved by the acceleration control schedule,with the impulse of the acceleration process of the triple-bypass mode being increased by 8.7%-12.3% and the impulse of the double-bypass mode acceleration process being increased by 11.8%-14.1%.

关键词： Adaptive Cycle Engine(ACE) Direct simulation method Acceleration Control schedule Full flight envelope

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Interplay between Microscopic Structures and Macroscopic Viscoelastic Properties of Polyampholyte Gels

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Chinese Journal of Polymer Science 2024年第9期42卷 1360-1367,I0008页

作者： You-Cai Xue Yi-ming Yang Di jia Beijing National Laboratory for Molecular Sciences Laboratory of Polymer Physics and ChemistryInstitute of ChemistryChinese Academy of SciencesBeijing100190China University of Chinese Academy of Sciences Beijing100049China

Polyampholyte gels,which have hierarchical structures,exhibit excellent self-healing properties and have great promise for biomaterials and *** investigated the relationship between microscopic structures and macroscopic viscoelastic properties of polyampholyte gels and found three factors influencing their viscoelastic properties,including the chemical crosslinking bonds,topological entanglements controlled by monomer concentration,and the ionic *** strength plays a major role on the strength of ionic bonds.A crossover point of elastic modulus and loss modulus was observed in the dynamic frequency sweeps at low monomer concentration or low chemical crosslinking density for gels with intermediate strength of ionic *** solid-liquid transition signaled by the crossover point is a typical feature of dynamic associated gels,representing the dynamical association-dissociation of the ionic bonds and full relaxation of the topological entanglements in the gel *** the crossover point disappears when the ionic bonds are too weak or too strong to form“permanent”***,in the non-linear yielding measurement,gels with intermediate strength of the ionic bonds are ductile and yield at very large shear strain due to the self-healing properties and the dynamic association-dissociation of the ionic *** the self-healing properties disappear when the ionic bond strength is too weak or too *** work reveals the mechanism of how the dynamic association-dissociation of ionic bonds influences both the linear and non-linear viscoelastic properties of the polyampholyte gels.

关键词： Polyampholyte gel Ionic bond Topological entanglement Self-healing Hierarchical structure

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