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Evolution and Domestication Footprints Uncovered from the Genomes of Coix

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Molecular Plant 2020年第2期13卷 295-308页

作者： Hongbing Liu Junpeng Shi Zexi Cai Yumin Huang Menglu Lv Huilong Du Qiang Gao Yi Zuo Zhaobin Dong Wei Huang Rui Qin Chengzhi Liang jinsheng lai Weiwei Jin State Key Laboratory of Plant Physiology and Biochemistry National Maize Improvement CenterKey Laboratory of Crop Heterosis and Utilizationthe Ministry of EducationCollege of Agronomy and BiotechnologyChina Agricultural UniversityBeijing 100193P.R.China Center for Crop Functional Genomics and Molecular Breeding China Agricultural UniversityBeijing 100193P.R.China State Key Laboratory of Agrobiotechnology China Agricultural UniversityBeijing 100193P.R.China State Key Laboratory of Plant Genomics Institute of Genetics and Developmental Biologythe Innovative Academy of Seed DesignChinese Academy of Sciences1 Beichen West Road No.2Beijing 100101P.R.China Key Laboratory for Protection and Application of Special Plant Germplasm in Wuling Area of Hubei Province South-Central University for NationalitiesWuhan 430074P.R.China

Coix lacryma-jobi,a plant species closely related to Zea and Sorghum,is an important food and medicinal crop in ***,no reference genome of this species has been reported,and its exact phylogeny within the Andropogoneae remains ***,we generated a high-quality genome assembly of coix comprising～1.73 Gb with 44485 predicted protein-coding *** found coix to be a typical diploid plant with an overall 1-to-1 syntenic relationship with the Sorghum genome,despite its drastic genome expansion(～2.3-fold)due mainly to the activity of transposable *** analysis revealed that coix diverged with sorghum～10.41 million years ago,which was～1.49 million years later than the divergence between sorghum and *** of 27 additional coix accessions revealed that they could be unambiguously separated into wild relatives and cultivars,and suggested that coix experienced a strong genetic bottleneck,resulting in the loss of about half of the genetic diversity during domestication,even though many traits have remained *** data not only provide novel comparative genomic and evolutionary insights into the Andropogoneae lineage,but also an important resource that will greatly benefit molecular breeding of this important crop.

关键词： Coix lacryma-jobi L. genome comparative genomics domestication

Comprehensive DNA barcode reference library and optimization of genetic divergence threshold facilitate the exploration of species diversity of green lacewings (Neuroptera: Chrysopidae)

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Insect Science 2024年第2期31卷 613-632页

作者： Yan lai Kaiyu Li Xingyue Liu Deparment of Entomology Cllege of Plant ProtectionChina Agricultural UniversityBejingChina College of Bioogical Sciencs China Agricultural UniversityBeijingChina

Chrysopidae are a family of Neuroptera of significant importance in biocontrol against agricultural pests because of their predatory ***,the taxonomy of Chrysopidae lacks a comprehensive revision,which impedes the exploration of species diversity as well as the selection and the conservation of green lacewings as biocontrol *** have established a DNA barcode reference library of the Chinese green lacewings based on an approximately complete sampling(95.63%)in 25 of the 34 provincial regions in China,comprising 1119 barcodes of 25 genera and 197 species(representing 85%genera and 43.62%species from China).Combining other 1049 high quality green lacewing DNA barcodes,we first inferred the optimal threshold of interspecific genetic divergence(1.87%)for successful species identification in multiple simulated scenarios based on present *** further inferred the threshold of genetic divergence(7.77%)among genera with biocontrol *** inference and performance of the threshold appears to be mainly associated with the completeness of sampling,the proportion of closely related species,and the analytical *** new combinations,Apertochrysa platypa(Yang&Yang,1991)***.,Apertochrysa shennongana(Yang&Wang,1990)***.,Apertochrysa pictifacialis(Yang,1988)***.,Apertochrysa helana(Yang,1993)***.,Plesiochrysa rosulata(Yang&Yang,2002)***.,and Signochrysa hainana(Yang&Yang,1991),are proposed according to integrative species *** library and optimal threshold will effectively facilitate the exploration of species diversity of green *** study also provides a methodological reference in molecular delimitation of other insects.

关键词： Chrysopidae DNA barcode genetic distance optimal threshold species delimitation

The analysis of the eQTLs associated with the differential expression between maize two subgenomic duplicated genes

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The analysis of the eQTLs associated with the differential e...

Obituary:*** Zhang(1963-2023)-A scientist focused on toxins and their underlying mechanisms to decipher human diseases

第一届全国玉米生物学学术研讨会

作者：李恩 Shaojun Xie jinsheng lai State Key Laboratory of Agrobiotechnology and National Maize Improvement Center China Agricultural University

Whole genome duplications(WGDs)are a widespread feature during plant genome evolution,creating the types of single gene and duplicate genes by biased fractionation and genome *** the prevalence of these events,the mec...

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Zoological Research 2024年第1期45卷 230-232页

作者： Wenhui Lee Ren lai the Key Laboratory of Bioactive Peptides of Yunnan Province Engineering Laboratory of Peptides of Chinese Academy of SciencesKIZ-CUHK Joint Laboratory of Bioresources and Molecular Research in Common DiseasesNational Resource Centre for Non-Human PrimatesKunming Primate Research CentreNational Research Facility for Phenotypic&Genetic Analysis of Model Animals(Primate Facility)Sino-African Joint Research CentreNew Cornerstone Science InstituteKunming Institute of ZoologyChinese Academy of SciencesKunmingYunnan 650107China

*** Zhang was born on 9 July 1963 in Kunming,Yunnan,China,during a tumultuous period which he often *** his life,he harbored a steadfast belief in using knowledge to unravel the mysteries of human *** educational journey was marked by frequent changes in schools due to his parents’occupational ***,despite these challenges,he consistently displayed diligence and was admitted to the East China University of Science and Technology,Shanghai,after completing high school in *** remained an active and loyal member of the School of Biotechnology at the university.

关键词： admitted harbor mechanisms

Laser Powder Bed Fusion of Beta-Type Titanium Alloys for Biomedical Application:A Review

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Acta Metallurgica Sinica(English Letters) 2024年第1期37卷 17-28页

作者： Xuan Luo Chao Yang Dongdong Li lai-Chang Zhang State Key Laboratory of Materials Processing and Die&Mould Technology Huazhong University of Science and TechnologyWuhan430074China National Engineering Research Center of Near-Net-Shape Forming for Metallic Materials Guangdong Provincial Key Laboratory for Processing and Forming of Advanced Metallic MaterialsSouth China University of TechnologyGuangzhou510640China Centre for Advanced Materials and Manufacturing School of EngineeringEdith Cowan University270 Joondalup DriveJoondalupPerthWA6027Australia

Additive manufacturing ofβ-type titanium alloy is expected to replace Ti-6Al-4V alloy in the field of orthopedic implantation because of their low elastic modulus,excellent corrosion resistance,and *** briefly introducing the laser powder bed fusion(LPBF)process and physical phenomena,this paper reviews the recent progresses in LPBF-edβ-type Ti *** strategies to strengthening and tougheningβ-type Ti alloys are critically *** is followed by the processing routes employed to achieve to low modulus for orthopedic applications,especially a new methodology for tailoring crystallographic orientation called multi-track coupled directional *** effect of processing and compositions on performance metrics ofβ-type Ti alloys included corrosion behavior,and biocompatibility is *** the end,challenges in additive manufacturing ofβ-type Ti alloys in future are highlighted,with the aim to ensue clinical application of LPBF-edβ-type Ti alloys.

关键词： β-type Ti alloys Laser powder bed fusion Mechanical properties Elastic modulus Biocompatibility

Adrenal pheochromocytoma impacts three main pathways: cysteine-methionine, pyrimidine, and tyrosine metabolism

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Journal of Zhejiang University-Science B(Biomedicine & Biotechnology) 2024年第5期25卷 410-421页

作者： Chong lai Qingling YANG Yunuo ZHANG Renjie GONG Majie WANG Jiankang LI Maode lai Qingrong SUN Department of Urology the First Affiliated HospitalZhejiang University School of MedicineHangzhou 310003China School of Basic Medical Sciences and Clinical Pharmacy China Pharmaceutical UniversityNanjing 210009China Department of Laboratory Medicine the First Affiliated HospitalZhejiang University School of MedicineHangzhou 310003China Laboratory of Behavioral Neuroscience Ningbo Kangning HospitalNingbo Institute of Microcirculation and HenbaneSchool of MedicineNingbo UniversityNingbo 315201China Xi'an Key Laboratory of Stem Celland Regenerative Medicine Institute of Medical ResearchNorthwestern Polytechnical UniversityXi'an 710072China Department of Pathology Research Unit of Intelligence Classification of Tumor Pathology and Precision TherapyChinese Academy of Medical Sciences Key Laboratory of Disease Proteomics of Zhejiang ProvinceZhejiang University School of MedicineHangzhou 310058China

Pheochromocytomas and paragangliomas(PPGLs)cause symptoms by altering the circulation levels of catecholamines and peptide ***,the diagnosis of PPGLs relies on diagnostic imaging and the detection of *** this study,we used ultra-performance liquid chromatography(UPLC)/quadrupole time-of-flight mass spectrometry(Q-TOF MS)analysis to identify and measure the perioperative differential metabolites in the plasma of adrenal pheochromocytoma *** identified differentially expressed genes by comparing the transcriptomic data of pheochromocytoma with the normal adrenal *** conducting two steps of metabolomics analysis,we identified 111 differential metabolites between the healthy group and the patient group,among which 53 metabolites were *** integrating the information of differential metabolites and differentially expressed genes,we inferred that the cysteine-methionine,pyrimidine,and tyrosine metabolism pathways were the three main metabolic pathways altered by the *** analysis of transcription levels revealed that the tyrosine and cysteine-methionine metabolism pathways were downregulated in pheochromocytoma,whereas the pyrimidine pathway showed no significant ***,we developed an optimized diagnostic model of two metabolites,L-dihydroorotic acid and *** results for these metabolites suggest that they may serve as potential clinical biomarkers and can be used to supplement and improve the diagnosis of pheochromocytoma.

关键词： Pheochromocytoma and paraganglioma(PPGL) Metabolomics Gene set variation analysis L-Dihydroorotic acid Vanylglycol

Discrete Boltzmann model with split collision for nonequilibrium reactive flows

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Communications in Theoretical Physics 2024年第8期76卷 166-188页

作者： Chuandong Lin Kai H Luo Huilin lai Sino-French Institute of Nuclear Engineering and Technology Sun Yat-sen University Key Laboratory for Thermal Science and Power Engineering of Ministry of Education Department of Energy and Power Engineering Tsinghua University Department of Mechanical Engineering National University of Singapore Department of Mechanical Engineering University College London School of Mathematics and Statistics Key Laboratory of Analytical Mathematics and Applications (Ministry of Education) Fujian Key Laboratory of Analytical Mathematics and Applications (FJKLAMA) Center for Applied Mathematics of Fujian Province (FJNU) Fujian Normal University

A multi-relaxation-time discrete Boltzmann model(DBM) with split collision is proposed for both subsonic and supersonic compressible reacting flows, where chemical reactions take place among various components. The physical model is based on a unified set of discrete Boltzmann equations that describes the evolution of each chemical species with adjustable acceleration, specific heat ratio, and Prandtl number. On the right-hand side of discrete Boltzmann equations, the collision,force, and reaction terms denote the change rates of distribution functions due to self-and crosscollisions, external forces, and chemical reactions, respectively. The source terms can be calculated in three ways, among which the matrix inversion method possesses the highest physical accuracy and computational efficiency. Through Chapman–Enskog analysis, it is proved that the DBM is consistent with the reactive Navier–Stokes equations, Fick's law and the Stefan–Maxwell diffusion equation in the hydrodynamic limit. Compared with the one-step-relaxation model, the split collision model offers a detailed and precise description of hydrodynamic, thermodynamic, and chemical nonequilibrium effects. Finally, the model is validated by six benchmarks, including multicomponent diffusion, mixture in the force field, Kelvin–Helmholtz instability, flame at constant pressure, opposing chemical reaction, and steady detonation.

关键词： detonation discrete Boltzmann method nonequilibrium effect reactive flow

Benchmarking visual SLAM methods in mirror environments

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Computational Visual Media 2024年第2期10卷 215-241页

作者： Peter Herbert Jing Wu Ze Ji Yu-Kun lai School of Computer Science and Informatics Cardiff UniversityAbacws BuildingSenghennydd RdCardiff CF244AGUK School of Engineering Cardiff UniversityQueen’s BuildingsThe ParadeCardiff CF243AAUK

Visual simultaneous localisation and mapping(vSLAM)finds applications for indoor and outdoor navigation that routinely subjects it to visual complexities,particularly mirror *** effect of mirror presence(time visible and its average size in the frame)was hypothesised to impact localisation and mapping performance,with systems using direct techniques expected to perform ***,a dataset,MirrEnv,of image sequences recorded in mirror environments,was collected,and used to evaluate the performance of existing representative *** ORB-SLAM3 and BundleFusion appear to show moderate degradation of absolute trajectory error with increasing mirror duration,whilst the remaining results did not show significantly degraded localisation *** mesh maps generated proved to be very inaccurate,with real and virtual reflections colliding in the reconstructions.A discussion is given of the likely sources of error and robustness in mirror environments,outlining future directions for validating and improving vSLAM performance in the presence of planar *** MirrEnv dataset is available at https://***/10.17035/d.2023.0292477898.

关键词： visual simultaneous localisation and mapping(vSLAM) mirror localisation mapping reflection datase

Non-uniform thermal behavior of single-layer spherical reticulated shell structures considering time-variant environmental factors: analysis and design

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Journal of Zhejiang University-Science A(Applied Physics & Engineering) 2024年第3期25卷 223-237页

作者： Wucheng XU Xiaoqing ZHENG Xuanhe ZHANG Zhejie lai Yanbin SHEN College of Civil Engineering and Architecture Zhejiang UniversityHangzhou 310058China Center for Balance Architecture Zhejiang UniversityHangzhou 310028China Innovation Center of Yangtze River Delta Zhejiang UniversityJiaxing 314100China Zhejiang Provincial Key Laboratory of Space Structures Zhejiang UniversityHangzhou 310058China

Contrary to conventional design methods that assume uniform and slow temperature changes tied to atmospheric conditions,single-layer spherical reticulated shells undergo significant non-uniform and time-variant temperature variations due to dynamic environmental *** differences can affect structural performance and pose safety ***,a systematic numerical method was developed and applied to simulate long-term temperature variations in such a structure under real environmental conditions,revealing its non-uniform distribution characteristics and time-variant regularity.A simplified design method for non-uniform thermal loads,accounting for time-variant environmental factors,was theoretically derived and validated through experiments and *** maximum deviation and mean error rate between calculated and tested results were 6.1℃ and 3.7%,*** temperature fields aligned with simulated ones,with deviations under 6.0℃.Using the design method,non-uniform thermal effects of the structure are *** member stress and nodal displacement under non-uniform thermal loads reached 119.3 MPa and 19.7 mm,representing increases of 167.5%and 169.9%,respectively,compared to uniform thermal *** impacts of healing construction time on non-uniform thermal effects were evaluated,resulting in construction *** methodologies and conclusions presented here can serve as valuable references for the thermal design,construction,and control of single-layer spherical reticulated shells or similar structures.

关键词： Non-uniform temperature field Non-uniform thermal load Non-uniform thermal effect Single-layer spherical reticulated shell Time-variant environmental factor