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Clonal spread of Escherichia coli O101:H9-ST10 and O101:H9-ST167 strains carrying fosA3 and blaCTX-M-14 among diarrheal calves in a Chinese farm,with Australian Chroicocephalus as the possible origin of E.coli O101:H9-ST10

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Zoological Research 2021年第4期42卷 461-468页

作者： Wan-Yun He Xing-Xing Zhang Guo-Long Gao Ming-Yi Gao Fa-Gang zhong Lu-Chao Lv zhong-peng cai Xing-Feng Si Jun Yang Jian-Hua Liu College of Veterinary Medicine South China Agricultural UniversityGuangzhouGuangdong 510642China Guangdong Laboratory for Lingnan Modern Agriculture GuangzhouGuangdong 510642China State Key Laboratory for Sheep Genetic Improvement and Healthy Production Institute of Animal Husbandry and VeterinaryXinjiang Academy of Agricultural and Reclamation ScienceShiheziXinjiang 832000China Zhejiang Tiantong Forest Ecosystem National Observation and Research Station School of Ecological and Environmental SciencesEast China Normal UniversityShanghai 200241China

During a 2018 antimicrobial resistance surveillance of Escherichia coli isolates from diarrheal calves in Xinjiang Province,China,an unexpectedly high prevalence(48.5%)of fosfomycin resistance was observed.This study aimed to reveal the determinants of fosfomycin resistance and the underlying transmission mechanism.Polymerase chain reaction(PCR)screening showed that all fosfomycin-resistant E.coli carried the fosA3 gene.Pulsed-field gel electrophoresis(PFGE)and southern blot hybridization revealed that the 16 fosA3-positive isolates belonged to four different PFGE patterns(i.e.,A,B,C,D).The fosA3 genes of 11 clonally related strains(pattern D)were located on the chromosome,while others were carried by plasmids.Whole-genome and long-read sequencing indicated that the pattern D strains were E.coli O101:H9-ST10,and the pattern C,B,and A strains were O101:H9-ST167,O8:H30-ST1431,and O101:H9 with unknown ST,respectively.Among the pattern C strains,the blaCTX-M-14 gene was co-localized with the fosA3 gene on the F18:A-:B1 plasmids.Interestingly,phylogenetic analysis based on core genome single nucleotide polymorphisms(cgSNPs)showed that the O101:H9-ST10 strains were closely related to a Australian-isolated Chroicocephalus-origin E.coli O101:H9-ST10 strain producing CTX-M-14 and FosA3,with a difference of only 11 SNPs.These results indicate possible international dissemination of the high-risk E.coli clone O101:H9-ST10 by migratory birds.

关键词： Clonal spread Bovine fosA3 blaCTX-M-14 O101:H9-ST10 Chroicocephalus

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BSEC Method for Unveiling Open Clusters and its Application to Gaia DR3:83 New Clusters

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Research in Astronomy and Astrophysics 2024年第5期24卷 169-184页

作者： zhong-Mu Li cai-Yan Mao Institute of Astronomy and Information Dali UniversityDali 671003China

Open clusters(OCs) are common in the Milky Way, but most of them remain undiscovered. There are numerous techniques, including some machine-learning algorithms, available for the exploration of OCs. However, each method has its limitations and therefore, different approaches to discovering OCs hold significant values. We develop a comprehensive approach method to automatically explore the data space and identify potential OC candidates with relatively reliable membership determination. This approach combines the techniques of Hierarchical Density-Based Spatial Clustering of Applications with Noise, Gaussian mixture model, and a novel cluster member identification technique, color excess constraint. The new method exhibits efficiency in detecting OCs while ensuring precise determination of cluster memberships. Because the main feature of this technique is to add an extra constraint(EC) for the members of cluster candidates using the homogeneity of color excess,compared to typical blind search codes, it is called Blind Search-Extra Constraint(BSEC) method. It is successfully applied to the Gaia Data Release 3, and 83 new OCs are found, whose color–magnitude diagrams(CMDs) are fitted well to the isochrones. In addition, this study reports 621 new OC candidates with discernible main sequence or red giant branch. It is shown that BSEC technique can discard some false negatives of previous works, which takes about three percentage of known clusters. It shows that as an EC, the color excess(or twocolor) constraint is useful for removing fake cluster member stars from the clusters that are identified from the positions and proper motions of stars, and getting more precise CMDs, when differential reddening of member stars of a cluster is not large(e.g., ΔE(GBP-GRP) < 0.5 mag). It makes the CMDs of 15% clusters clearer(in particular for the region near turnoff) and therefore is helpful for CMD and stellar population studies. Our result suggests that the color excess constraint is more appropriate for clusters with small di

关键词： Galaxy stellar content-(Galaxy:)open clusters and associations general-stars fundamental parameters

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An ultra-porous g-C_(3)N_(4) micro-tube coupled with MXene(Ti_(3)C_(2)TX)nanosheets for efficient degradation of organics under natural sunlight

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Journal of Environmental Sciences 2024年第3期137卷 258-270页

作者： Zongyang Ya Qiyou Wang Jingjin cai peng Wang Xinyu Jiang Zhiyin cai Shanglin Xiang Tingwei Wang Dongyu cai College of Materials Science&Engineering Nanjing Tech University30 South PuZhu RoadNanjing 211816China Key Laboratory of Flexible Electronics(KLOFE)&Institute of Advanced Materials(IAM) Jiangsu National Synergetic Innovation Center for Advanced Materials(SICAM)Nanjing Tech University30 South PuZhu RoadNanjing 211816China

It remains as a challenge for realizing efficient photo-responsive catalysts towards largescale degradation of organic pollutants under natural sunlight.This work reports a new pore engineering strategy for creating ultra-porous g-C_(3)N_(4) micro-tubes with an unprecedentedly high specific surface area of 152.96 m^(2)/g.This is mainly associated with releasing internal vapor pressure in the autoclave where the hydrothermal treatment of the urea/melamine mixture is processed.Supported by microscopic observation,porosity measurement and spectroscopic characterization,it is found that releasing the pressure at halfway of hydrothermal process is vital for forming exfoliated rod-like precursors and the de-aggregation of these rods presents substantial benefits on the production of mesopores on g-C_(3)N_(4) microtubes during the calcination of precursors.This offers a large number of reactive sites required by photocatalytic reaction.Coupling these micro-tubes with Ti_(3)C_(2)T_(X) nanosheets via electrostatic interaction yields a 1D/2D heterojunction with a close interfacial contact.The addition of metallically conductive Ti_(3)C_(2)T_(X) nanosheets accelerates the separation between electrons and holes,and also enhances the light absorption.All these merits of structural design lead to forming a group of highly efficient catalysts demonstrating an excellent photocatalytic degradation rate of k=0.0560 min^(-1)for RhB dyes under 100 mW/cm~2 visible light radiation that micks sunlight outdoors.This laboratory valuation is further supported by an outdoor test that shows a fast degradation rate of 0.0744 min^(-1)under natural sunlight.

关键词： Carbon nitride MXene Heterojunction Photocatalysis

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APTAnet: an atom-level peptide-TCR interaction affinity prediction model

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Biophysics Reports 2024年第1期10卷 1-14页

作者： peng Xiong Anyi Liang Xunhui cai Tian Xia School of Artificial Intelligence and Automation Huazhong University of Science and Technology Institute of Pathology Tongji Hospital Tongji Medical College Huazhong University of Science and Technology

The prediction of affinity between TCRs and peptides is crucial for the further development of TIL(Tumor-Infiltrating Lymphocytes) immunotherapy. Inspired by the broader research of drug-protein interaction(DPI), we propose an atom-level peptide-TCR interaction(PTI) affinity prediction model APTAnet using natural language processing methods. APTAnet model achieved an average ROC-AUC and PR-AUC of 0.893 and 0.877, respectively, in ten-fold cross-validation on 25,675 pairs of PTI data.Furthermore, experimental results on an independent test set from the McPAS database showed that APTAnet outperformed the current mainstream models. Finally, through the validation on 11 cases of real tumor patient data, we found that the APTAnet model can effectively identify tumor peptides and screen tumor-specific TCRs.

关键词： Immunotherapy TCR Antigen Natural language processing Transfer learning

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Application of neoadjuvant chemoradiotherapy and neoadjuvant chemotherapy in curative surgery for esophageal cancer:A metaanalysis

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World Journal of Gastrointestinal Oncology 2024年第1期16卷 214-233页

作者： Mao-Xiu Yuan Qi-Gui cai Zhen-Yang Zhang Jian-zhong Zhou cai-Yun Lan Jiang-Bo Lin The Graduate School Fujian Medical UniversityFuzhou 350000Fujian ProvinceChina Department of Thoracic Surgery Affiliated Hospital of Jinggangshan UniversityJi’an 343000Jiangxi ProvinceChina Department of Thoracic Surgery Fujian Medical University Union HospitalFuzhou 350000Fujian ProvinceChina

BACKGROUND The effectiveness of neoadjuvant therapy in esophageal cancer(EC)treatment is still a subject of debate.AIM To compare the clinical efficacy and toxic side effects between neoadjuvant chemoradiotherapy(nCRT)and neoadjuvant chemotherapy(nCT)for locally advanced EC(LAEC).METHODS A comprehensive search was conducted using multiple databases,including PubMed,EMBASE,MEDLINE,Science Direct,The Cochrane Library,China National Knowledge Infrastructure,Wanfang Database,Chinese Science and Technology Journal Database,and Chinese Biomedical Literature Database Article.Studies up to December 2022 comparing nCRT and nCT in patients with EC were selected.RESULTS The analysis revealed significant differences between nCRT and nCT in terms of disease-free survival.The results indicated that nCRT provided better outcomes in terms of the 3-year overall survival rate(OSR)[odds ratio(OR)=0.95],complete response rate(OR=3.15),and R0 clearance rate(CR)(OR=2.25).However,nCT demonstrated a better 5-year OSR(OR=1.02)than nCRT.Moreover,when compared to nCRT,nCT showed reduced risks of cardiac complications(OR=1.15)and pulmonary complications(OR=1.30).CONCLUSION Overall,both nCRT and nCT were effective in terms of survival outcomes for LAEC.However,nCT exhibited better performance in terms of postoperative complications.

关键词： Esophageal cancer Neoadjuvant chemoradiotherapy Radical resection for esophageal cancer Neoadjuvant chemotherapy Meta-analysis

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Comparison of corrosion mechanisms of 510L low alloy steel treated by ACS and EPS techniques under various service environments

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Journal of Iron and Steel Research(International) 2024年第2期31卷 501-518页

作者： Bao-sheng Liu peng-fei Xu Shao-hua Zhang Yan-rui Li Li-ming Mou Jia-li Li Yue-zhong Zhang Pei-mao Fu Fa-cai Shi College of Materials Science and Engineering Taiyuan University of Science and TechnologyTaiyuan030024ShanxiChina College of Chemical and Biological Engineering Taiyuan University of Science and TechnologyTaiyuan030024ShanxiChina Technical Center Taiyuan Iron and Steel(Group)Co.Ltd.Taiyuan030003ShanxiChina

The corrosion mechanism of 510L low alloy steel treated by acid-cleaned surface(ACS)and eco-pickled surface(EPS)techniques in three simulated solutions(S0:atmospheric environment;S1:soil environment;S2:industrial environment)and the influence of interaction between different corrosive anions on corrosion were investigated.The results show that the total corrosion rates of samples in three simulated solutions were in order of S2>S0>S1,which is simultaneously correlated with initial corrosion dissolution processes as well as after the formation of corrosion products.HCO3−will inhibit the initial corrosion owing to the formation of films,whereas HSO3−will accelerate the dissolutions of the matrix based on the synergistic action of HSO3−and Cl−.On the other hand,there is no significant difference in corrosion rates between the samples treated by ACS and EPS techniques.The EPS technique that is safe,reusable and environmentally friendly can be further widely used in future work.

关键词： Corrosion mechanism Low alloy steel Simulated solution Surface technique Immersion time

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Natural variation of an autophagy-family gene among rice subspecies affects grain size and weight

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The Crop Journal 2024年第1期12卷 121-132页

作者： Shiying Huang peng Wang caijing Li Qingwen Zhou Tao Huang Yicong cai Qin Cheng Hui Wang Qi zhong Zhihao Chen Liping Chen Haohua He Jianmin Bian Key Laboratory of Crop Physiology Ecology and Genetic BreedingMinistry of Education.Jiangxi Agricultural UniversityNanchang 330045JiangxiChina Weill Cornell Medical Immunology and Microbiology1300 York AvenueBox 62New YorkNY 10065USA

Elucidating the genetic basis of natural variation in grain size and weight among rice varieties can help breeders develop high-yielding varieties.We identified a novel gene,GW3a(Grain Weight 3a)(LOC_Os03g27350),that affects rice grain size and weight.gw3a mutants showed higher total starch content and dry matter accumulation than the wild type(WT),Nipponbare,suggesting that GW3a negatively regulates grain size and weight.Moreover,our study found that GW3a interacted with OsATG8 by cleaving it,suggesting that GW3a may be involved in the assembly of autophagosomes and starch degradation in plants.The haplotype analysis of GW3a showed functional differences between indica and japonica rice.Taken together,we conclude that GW3a is expressed in the autophagosome pathway regulating starch metabolism in rice,affecting yield-related traits,such as grain size,grain weight and thousand grain weight(TGW).Our findings also shed new light on autophagy-mediated yield trait regulation,proposing a possible strategy for the genetic improvement of high-yield germplasm in rice.

关键词： Grain size GW3a Autophagy Starch content

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Interface strengthening for thermal sprayed WC-10Co4Cr coating subjected to pulsed magnetic treatment

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Rare Metals 2024年第2期43卷 780-795页

作者： Cheng-Kai Qian Qu Liu Heng Wang Ke-Jian Li Zhi-peng cai Department of Mechanical Engineering Tsinghua UniversityBeijing100084China Tianjin Research Institute for Advanced Equipment Tsinghua UniversityTianjin300304China State Key Laboratory of Tribology in Advanced Equipment Tsinghua UniversityBeijing100084China

The reliability of the coated industry components demands ideal fatigue properties of the coating,and it is mainly determined by the performance of the interfaces.In this study,pulsed magnetic treatment(PMT)was applied to the thermal sprayed WC-10Co4Cr coating,and the fatigue lifetime of the coated bolt increased by 219.82%under an imitation of the operating mode condition.Scratch tests further proved that both the adhesion and cohesion strength were improved after PMT,and they benefit from the interface strengthening effects.The formation of coherent WC/Co interfaces was characterized by in-situ transmission electron microscopy(TEM),and the molecular dynamic simulations indicate that the work of separation of these interfaces is much higher than the original disordered ones.Residual stress was relaxed and distributed more homogeneously after PMT,and it mainly contributes to the coating/substrate strengthening.This work provides a new post-treatment method focusing on the interfaces in the WC-based coating and gives insight into its mechanism so that it is hopeful to be applied to other kinds of coatings.

关键词： Cemented carbide coating Pulsed magnetic treatment Interface strengthening Fatigue properties Adhesion strength

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Chromosome-scale genomes of Quercus sichourensis and Quercus rex provide insights into the evolution and adaptation of Fagaceae

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Journal of Genetics and Genomics 2024年第5期51卷 554-565页

作者： Xue Liu Weixiong Zhang Yongting Zhang Jing Yang peng Zeng Zunzhe Tian Weibang Sun Jing cai Shaanxi Key Laboratory of Qinling Ecological Intelligent Monitoring and Protection School of Ecology and EnvironmentNorthwestern Polytechnical UniversityXi'anShaanxi 710072China Yunnan Key Laboratory for Integrative Conservation of Plant Species with Extremely Small Populations Kunming Institute of BotanyChinese Academy of SciencesKunmingYunnan 650201China

The Fagaceae,a plant family with a wide distribution and diverse adaptability,has garnered significant interest as a subject of study in plant speciation and adaptation.Meanwhile,certain Fagaceae species are regarded as highly valuable wood resources due to the exceptional quality of their wood.In this study,we present two high-quality,chromosome-scale genome sequences for Quercus sichourensis(848.75 Mb)and Quercus rex(883.46 Mb).Comparative genomics analysis reveals that the difference in the number of plant disease resistance genes and the nonsynonymous and synonymous substitution ratio(Ka/Ks)of protein-coding genes among Fagaceae species are related to different environmental adaptations.Interestingly,most genes related to starch synthesis in the investigated Quercoideae species are located on a single chromosome,as compared to the outgroup species,Fagus sylvatica.Furthermore,resequencing and population analysis of Q.sichourensis and Q.rex reveal that Q.sichourensis has lower genetic diversity and higher deleterious mutations compared to Q.rex.The high-quality,chromosome-level genomes and the population genomic analysis of the critically endangered Q.sichourensis and Q.rex will provide an invaluable resource as well as insights for future study in these two species,even the genus Quercus,to facilitate their conservation.

关键词： Adaptation Quercus sichourensis Quercusrex Chromosome-scale genome assembly Tandemduplicationgenes Extremelysmallpopulations

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Single-cell sequencing technology in diabetic wound healing:New insights into the progenitors-based repair strategies

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World Journal of Stem Cells 2024年第5期16卷 462-466页

作者： Zhen Xiang Rui-peng cai Yang Xiao Yong-Can Huang Shenzhen Engineering Laboratory of Orthopaedic Regenerative Technologies Department of Spine SurgeryPeking University Shenzhen HospitalShenzhen 518036Guangdong ProvinceChina Department of Breast and Thyroid Surgery Peking University Shenzhen HospitalShenzhen 518036Guangdong ProvinceChina

Diabetes mellitus(DM),an increasingly prevalent chronic metabolic disease,is characterised by prolonged hyperglycaemia,which leads to long-term health consequences.Although much effort has been put into understanding the pathogenesis of diabetic wounds,the underlying mechanisms remain unclear.The advent of single-cell RNA sequencing(scRNAseq)has revolutionised biological research by enabling the identification of novel cell types,the discovery of cellular markers,the analysis of gene expression patterns and the prediction of develop-mental trajectories.This powerful tool allows for an in-depth exploration of pathogenesis at the cellular and molecular levels.In this editorial,we focus on progenitor-based repair strategies for diabetic wound healing as revealed by scRNAseq and highlight the biological behaviour of various healing-related cells and the alteration of signalling pathways in the process of diabetic wound healing.ScRNAseq could not only deepen our understanding of the complex biology of diabetic wounds but also identify and validate new targets for inter-vention,offering hope for improved patient outcomes in the management of this challenging complication of DM.

关键词： Single-cell sequencing Diabetic wound healing Cell subpopulations Heterogeneity Pathogenesis Progenitor cells

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