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Insights into genetic diversity and phenotypic variations in domestic geese through comprehensive population and pan-genome analysis

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journal of Animal Science and Biotechnology 2024年第1期15卷 88-107页

作者： Guangliang Gao Hongmei Zhang jiangping Ni Xianzhi zhao Keshan Zhang jian Wang Xiangdong Kong Qigui Wang Chongqing Academy of Animal Science Rongchang DistrictChongqing 402460China Livestock and Poultry Multi‑Omics Key Laboratory of Ministry of Agriculture and Rural Affairs College of Animal Science and TechnologySichuan Agricultural UniversityChengdu 611130China Chongqing Engineering Research Center of Goose Genetic Improvement Rongchang DistrictChongqing 402460China Department of Cardiovascular Ultrasound and Non‑Invasive Cardiology Sichuan Academy of Medical Sciences and Sichuan Provincial People’s HospitalUniversity of Electronic Science and Technology of ChinaChengdu611731China Ultrasound in Cardiac Electrophysiology and Biomechanics Key Laboratory of Sichuan Province University of Electronic Science and Technology of ChinaChengdu611731China jiguangGene Biotechnology Co. Ltd.Nanjing210032China jiangsu Agri-Animal Vocational College Taizhou225300China Poultry Science Institute Chongqing Academy of Animal ScienceNo.51 Changzhou AvenueRongchang DistrictChongqing 402460P.R.China

Background Domestic goose breeds are descended from either the Swan goose(Anser cygnoides)or the Greylag goose(Anser anser),exhibiting variations in body size,reproductive performance,egg production,feather color,and other phenotypic traits.Constructing a pan-genome facilitates a thorough identification of genetic variations,thereby deepening our comprehension of the molecular mechanisms underlying genetic diversity and phenotypic variability.Results To comprehensively facilitate population genomic and pan-genomic analyses in geese,we embarked on the task of 659 geese whole genome resequencing data and compiling a database of 155 RNA-seq samples.By constructing the pan-genome for geese,we generated non-reference contigs totaling 612 Mb,unveiling a collection of 2,813 novel genes and pinpointing 15,567 core genes,1,324 softcore genes,2,734 shell genes,and 878 cloud genes in goose genomes.furthermore,we detected an 81.97 Mb genomic region showing signs of genome selection,encompassing the TGfBR2 gene correlated with variations in body weight among geese.Genome-wide association studies utilizing single nucleotide polymorphisms(SNPs)and presence-absence variation revealed significant genomic associations with various goose meat quality,reproductive,and body composition traits.for instance,a gene encoding the SVEP1 protein was linked to carcass oblique length,and a distinct gene-CDS haplotype of the SVEP1 gene exhibited an association with carcass oblique length.Notably,the pan-genome analysis revealed enrichment of variable genes in the“hair follicle maturation”Gene Ontology term,potentially linked to the selection of feather-related traits in geese.A gene presence-absence variation analysis suggested a reduced frequency of genes associated with“regulation of heart contraction”in domesticated geese compared to their wild counterparts.Our study provided novel insights into gene expression features and functions by integrating gene expression patterns across multiple organs and tissues in geese and analyzing population

关键词： Gene-CDS haplotype Goose GWAS Pan-genome Presence-absence variation Selection signal

Ultracompact silicon on-chip polarization controller

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Photonics Research 2024年第2期12卷 183-193页

作者： WEIKE zhao YINGYING PENG MINGYU ZHU RUORAN LIU XIAOLONG HU YAOCHENG SHI DAOXIN DAI State Key Laboratory for Modern Optical Instrumentation Center for Optical&Electromagnetic ResearchCollege of Optical Science and EngineeringInternational Research Center for Advanced PhotonicsZhejiang UniversityZijingang CampusHangzhou 310058China School of Precision Instrument and Optoelectronic Engineering Tianjin UniversityTianjin 300072China Key Laboratory of Optoelectronic Information Science and Technology Ministry of EducationTianjin 300072China Ningbo Research Institute Zhejiang UniversityNingbo 315100China

On-chip polarization controllers are extremely important for various optical systems.In this paper,a compact and robust silicon-based on-chip polarization controller is proposed and demonstrated by integrating a special polarization converter and phase shifters.The special polarization converter consists of a 1×1 Mach–Zehnder interferometer with two polarization-dependent mode converters at the input/output ends.When light with an arbitrary state of polarization(SOP)is launched into the chip,the TE_(0)and TM_(0)modes are simultaneously excited.The polarization extinction ratio(PER)and the phase difference for the TE_(0)∕TM_(0)modes are tuned by controlling the first phase shifter,the polarization converter,and the second phase shifter.As a result,one can reconstruct the light SOP at the output port.The fabricated polarization controller,as compact as~150μm×700μm,exhibits an excess loss of less than 1 dB and a record PER range of>54 dB for arbitrary input light beams in the wavelength range of 1530–1620 nm.

关键词： polarization SOP interferometer

Martensite decomposition under thermal-mechanical coupling conditions to fabricate an ultrafine-grained Ti6Al4Mo4Zr1W0.2Si alloy

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journal of Materials Science & Technology 2024年第1期168卷 157-168页

作者： Taoyu Zhou jiuxu Yang Nan Li Hao Sun Bohua Zhang Zibo zhao Qingjiang Wang Shi-changxu Innovation Center for Advanced Materials Institute of Metal ResearchChinese Academy of SciencesShenyang 110016China School of Materials Science and Engineering University of Science and Technology of ChinaShenyang 110016China

The fabrication of ultrafine-grained microstructures(grain size below 1μm)in titanium alloys is beneficial for improving their mechanical properties at room temperature and medium tempera-tures(400-550°C).However,a long-standing challenge involves the low-cost manufacturing of bulk ultrafine-grained titanium alloys.In this work,we developed a facile strategy through martensite de-composition at thermal-mechanical coupling conditions,to fabricate an equiaxed microstructure in a Ti6Al4Mo4Zr1W0.2Si model alloy with an averageαgrain size of 315±62 nm.The formation of the ultrafine-grained microstructure was because the lattice strain stored in the martensitic initial mi-crostructure enhanced the nucleation rate of dynamic recrystallization,meanwhile,the pinning role of martensite decomposition productsβand(Ti,Zr)_(5)Si_(3)phases suppressed grain coarsening at high tem-peratures.Compared to conventional(α+β)alloys,the tensile strength of this alloy improved by 20%-30%at both room temperature and 550°C,without decreasing its ductility.In situ SEM observations revealed that the ultrafine-grained microstructure would not only suppress dislocation motions but also contribute to the homogenous deformation in the matrix of the material,therefore,it resulted in higher mechanical performance.The research results may be of great significance to the development of next-generation aviation titanium alloys.

关键词： Ultrafine-grained Titanium alloy In situ observation Deformation mechanism Thermostability

A combination of straw incorporation and polymer-coated urea offsets soil ammonia and nitrous oxide emissions in winter wheat fields

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journal of Integrative Agriculture 2024年第5期23卷 1718-1736页

作者： Xiaoyun Wang Yajie Tian Qianhui Zhang Zhengxin zhao Rui Wang Huanjie Cai Key Laboratory of Agricultural Soil and Water Engineering in Arid and Semiarid Areas of Ministry of Education Northwest A&F UniversityYangling712100China College of Water Resources and Architectural Engineering Northwest A&F UniversityYangling 712100China

The combined effects of straw incorporation(SI)and polymer-coated urea(PCU)application on soil ammonia(NH_(3))and nitrous oxide(N_(2)O)emissions from agricultural fields have not been comprehensively evaluated in Northwest China.We conducted a two-year field experiment to assess the effects of combining SI with either uncoated urea(U)or PCU on soil NH_(3)emissions,N_(2)O emissions,winter wheat yields,yield-scaled NH_(3)(/NH_(3)),and yield-scaled N_(2)O(/N_(2)O).five treatments were investigated,no nitrogen(N)fertilizer(N_(0)),U application at 150 kg N ha-1 with and without SI(SI+U and S_(0)+U),and PCU application at 150 kg N ha^(-1) with and without SI(SI+PCU and S_(0)+PCU).The results showed that the NH_(3);emissions increased by 20.98-34.35%following Sl compared to straw removal,mainly due to increases in soil ammonium(NH_(4)^(+)-N)content and water-flled pore space(WfPS).SI resulted in higher N_(2)O emissions than under the So scenario by 13.31-49.23%due to increases in soil inorganic N(SIN)contents,WfPS,and soil microbial biomass.In contrast,the PCU application reduced the SIN contents compared to the U application,reducing the NH_(3)and N_(2)O emissions by 45.99-58.07 and 18.08-53.04%,respectively.Moreover,no significant positive effects of the SI or PCU applications on the winter wheat yield were observed.The lowest /NH_(3) and /N_(2)O values were observed under the S_(0)+PCU and SI+PCU treatments.Our results suggest that single PCU applications and their combination with straw are the optimal agricultural strategies for mitigating gaseous N emissions and maintaining optimal winter wheat yields in Northwest China.

关键词： straw incorporation polymer-coated urea NH_(3)and N_(2)O emissions winter wheat yields

Text Difficulty Study:Do Machines Behave the Same as Humans Regarding Text Difficulty?

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Machine Intelligence Research 2024年第2期21卷 283-293页

作者： Bowen Chen Xiao Ding Yi zhao Bo fu Tingmao Lin Bing Qin Ting Liu Research Center for Social Computing and Information Retrieval Harbin Institute of TechnologyHarbin 150001China fundamental Technology Center China Construction Bank Financial Technology Co.Ltd.Beijing 100033China

With the emergence of pre-trained models,current neural networks are able to give task performance that is comparable to humans.However,we know little about the fundamental working mechanism of pre-trained models in which we do not know how they approach such performance and how the task is solved by the model.for example,given a task,human learns from easy to hard,whereas the model learns randomly.Undeniably,difficulty-insensitive learning leads to great success in natural language processing(NLP),but little attention has been paid to the effect of text difficulty in NLP.We propose a human learning matching index(HLM Index)to investigate the effect of text difficulty.Experiment results show:1)LSTM gives more human-like learning behavior than BERT.Additionally,UID-SuperLinear gives the best evaluation of text difficulty among four text difficulty criteria.Among nine tasks,some tasks’performance is related to text difficulty,whereas others are not.2)Model trained on easy data performs best in both easy and medium test data,whereas trained on hard data only performs well on hard test data.3)Train the model from easy to hard,leading to quicker convergence.

关键词： Cognition inspired natural language processing psycholinguistics explainability text difficulty curriculum learning

Collisionless shock acceleration of protons in a plasma slab produced in a gas jet by the collision of two laser-driven hydrodynamic shockwaves

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Matter and Radiation at Extremes 2024年第2期9卷 12-25页

作者： j.-R.Marquès L.Lancia P.Loiseau P.forestier-Colleoni M.Tarisien E.Atukpor V.Bagnoud C.Brabetz f.Consoli j.Domange f.Hannachi P.Nicolaï M.Salvadori B.Zielbauer LULI CNRSÉcole PolytechniqueCEASorbonne UniversitéInstitut Polytechnique de Paris91128 Palaiseau CedexFrance CEA DAMDIF91297 Arpajon CedexFrance UniversitéParis-Saclay CEALMCE91680 Bruyères-le-ChatelFrance CENBG CNRS-IN2P3Universitéde Bordeaux33175 Gradignan CedexFrance GSI Helmholtzzentrum für Schwerionenforschung GmbH Planckstraße 164291 DarmstadtGermany University of Darmstadt Schloßgartenstr.764289 DarmstadtGermany ENEA fusion and Technologies for Nuclear Safety Department C.R.FrascatiVia Enrico Fermi 45FrascatiRomeItaly CELIA Universitéde Bordeaux–CNRS–CEA33405 TalenceFrance UniversitéParis-Saclay CEALIDYL91191 Gif-sur-YvetteFrance

We have recently proposed a new technique of plasma tailoring by laser-driven hydrodynamic shockwaves generated on both sides of a gas jet[Marquès et al.,Phys.Plasmas 28,023103(2021)].In a continuation of this numerical work,we study experimentally the influence of the tailoring on proton acceleration driven by a high-intensity picosecond laser in three cases:without tailoring,by tailoring only the entrance side of the picosecond laser,and by tailoring both sides of the gas jet.Without tailoring,the acceleration is transverse to the laser axis,with a low-energy exponential spectrum,produced by Coulomb explosion.When the front side of the gas jet is tailored,a forward acceleration appears,which is significantly enhanced when both the front and back sides of the plasma are tailored.This forward acceleration produces higher-energy protons,with a peaked spectrum,and is in good agreement with the mechanism of collisionless shock acceleration(CSA).The spatiotemporal evolution of the plasma profile is characterized by optical shadowgraphy of a probe beam.The refraction and absorption of this beam are simulated by post-processing 3D hydrodynamic simulations of the plasma tailoring.Comparison with the experimental results allows estimation of the thickness and near-critical density of the plasma slab produced by tailoring both sides of the gas jet.These parameters are in good agreement with those required for CSA.

关键词： acceleration hydrodynamic collision

Coated sodium butyrate ameliorates high‑energy and low‑protein diet induced hepatic dysfunction via modulating mitochondrial dynamics, autophagy and apoptosis in laying hens

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journal of Animal Science and Biotechnology 2024年第3期15卷 1190-1206页

作者： Sasa Miao Tianming Mu Ru Li Yan Li Wenyan zhao jiankui Li Xinyang Dong Xiaoting Zou Key Laboratory of Animal feed and Nutrition of Zhejiang Province Key Laboratory of Animal Nutrition and Feed Science(Eastern of China)Ministry of Agriculture and Rural AffairsThe Key Laboratory of Molecular Animal NutritionMinistry of EducationCollege of Animal SciencesZhejiang UniversityHangzhou 310058China.

Background fatty liver hemorrhagic syndrome(fLHS),a fatty liver disease in laying hens,poses a grave threat to the layer industry,stemming from its ability to trigger an alarming plummet in egg production and usher in acute mortality among laying hens.Increasing evidence suggests that the onset and progression of fatty liver was closely related to mitochondria dysfunction.Sodium butyrate was demonstrated to modulate hepatic lipid metabolism,alle-viate oxidative stress and improve mitochondrial dysfunction in vitro and mice models.Nevertheless,there is limited existing research on coated sodium butyrate(CSB)to prevent fLHS in laying hens,and whether and how CSB exerts the anti-fLHS effect still needs to be explored.In this experiment,the fLHS model was induced by administering a high-energy low-protein(HELP)diet in laying hens.The objective was to investigate the effects of CSB on alleviating fLHS with a focus on the role of CSB in modulating mitochondrial function.Methods A total of 288 healthy 28-week-old Huafeng laying hens were arbitrarily allocated into 4 groups with 6 replicates each,namely,the CON group(normal diet),HELP group(HELP diet),CH500 group(500 mg/kg CSB added to HELP diet)and CH750 group(750 mg/kg CSB added to HELP diet).The duration of the trial encompassed a period of 10 weeks.Results The result revealed that CSB ameliorated the HELP-induced fLHS by improving hepatic steatosis and patho-logical damage,reducing the gene levels of fatty acid synthesis,and promoting the mRNA levels of key enzymes of fatty acid catabolism.CSB reduced oxidative stress induced by the HELP diet,upregulated the activity of GSH-Px and SOD,and decreased the content of MDA and ROS.CSB also mitigated the HELP diet-induced inflammatory response by blocking TNf-α,IL-1β,and f4/80.In addition,dietary CSB supplementation attenuated HELP-induced activation of the mitochondrial unfolded protein response(UPRmt),mitochondrial damage,and decline of ATPase activity.HELP diet decreased the autophagosome formation,and downregulated LC3B

关键词： Autophagy Coated sodium butyrate Laying hens Lipid metabolism Mitochondria

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In situ digital testing method for quality assessment of soft soil improvement with polyurethane

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journal of Rock Mechanics and Geotechnical Engineering 2024年第5期16卷 1732-1748页

作者： X.f.Wang C.j.Wang W.V.Yue Z.j.Zhang Z.Q.Yue Department of Civil Engineering China University of Geosciences (Beijing)BeijingChina Department of Water Science and Engineering Zhengzhou UniversityZhengzhouChina Department of Geotechnical Engineering Tongji UniversityShanghaiChina Department of Civil Engineering The University of Hong KongChina

This study purposes an in situ testing method on quality assessment of soil improvement.factual drilling data includes the spatial distribution and in situ strength of untreated and treated soil along three different drillholes measured by on-site drilling monitoring method.These factual drilling data can characterize the degree of soil improvement by penetration injection with permeable polyurethane.Result from on-site drilling monitoring shows that the linear zones represent constant drilling speeds shown in the plot of drill bit advancement *** drilling time,which indicates the spatial distributions of soil profile.The soil profile at the study site is composed of four layers,which includes fill,untreated silty clay,treated silty clay,and mucky soil.The results of soil profile are verified by the parallel site loggings.The constant drilling speeds profile the coring-resistant strength of drilled soils.By comparing with the untreated silty clay,the constant drilling speeds of the treated silty clay have been decreased by 13.0-62.8%.Two drilling-speed-based indices of 61.2%and 65.6%are proposed to assess the decreased average drilling speed and the increased in situ strength of treated silty clay.Laboratory tests,i.***.uniaxial compressive strength(UCS)test,have been performed with core sample to investigate and characterize in situ strength by comparing that with drilling speeds.Results show that the average predicted strengths of treated silty clay are 2.4-6.9 times higher than the average measured strength of untreated silty clay.The UCS-based indices of 374.5%and 344.2%verified the quality assessment(QA)results by this new in situ method.This method provides a cost-effective tool for quality assessment of soil improvement by utilizing the digital drilling data.

关键词： Drilling process monitoring system Hydraulic rotary drilling process Constant drilling speed Soil improvement Quality assessment

Comparative analysis of microstructure,mechanical,and corrosion properties of biodegradable Mg-3Y alloy prepared by selective laser melting and spark plasma sintering

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journal of Magnesium and Alloys 2024年第4期12卷 1496-1510页

作者： P.Minárik M.Zemková S.Šašek j.Dittrich M.Knapek f.Lukáˇc D.Koutný j.jaroš R.Král faculty of Mathematics and Physics Charles UniversityKe Karlovu 5Praha 12116Czech Republic Research Centre University ofŽilinaUniverzitná8215/1Žilina 01026Slovakia Institute of Plasma Physics of the Czech Academy of Sciences Za Slovankou 1782/318200 Praha 8Czech Republic Institute of Machine and Industrial Design Brno University of TechnologyTechnická2896/2Brno 61669Czech Republic

This work explored possibilities of biodegradable magnesium alloy Mg-3Y preparation by two modern powder metallurgy techniques–spark plasma sintering(SPS)and selective laser melting(SLM).The powder material was consolidated by both methods utilising optimised parameters,which led to very low porosity(∼0.3%)in the SLM material and unmeasurably low porosity in the SPS material.The main aim of the study was the thorough microstructure characterisation and interrelation between the microstructure and the functional properties,such as mechanical strength,deformability,and corrosion resistance.Both materials showed comparable strength of∼110 MPa in tension and compression and relatively good deformability of∼9%and∼21%for the SLM and SPS materials,respectively.The corrosion resistance of the SPS material in 0.1 M NaCl solution was superior to the SLM one and comparable to the conventional extruded material.The digital image correlation during loading and the cross-section analysis of the corrosion layers revealed that the residual porosity and large strained grains have the dominant negative effect on the functional properties of the SLM material.On the other hand,one of the primary outcomes of this study is that the SPS consolidation method is very effective in the preparation of the W3 biodegradable alloy,resulting in material with convenient mechanical and degradation properties that might find practical applications.

关键词： Magnesium Yttrium Powder metallurgy Microstructure Mechanical strength Corrosion resistance