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Plant Communications 2024年第9期5卷 21-24页

作者： zhaohui zhong Tingting Fan yao He Shishi Liu Xuelian zheng yang Xu Jingqi Ren Hua yuan zhengyan Xu yong zhang Department of Biotechnology School of Life Sciences and TechnologyCenter for Informational BiologyUniversity of Electronic Science and Technology of ChinaChengdu 610054China Chongqing Key Laboratory of Plant Resource Conservation and Germplasm Innovation Integrative Science Center of Germplasm Creation in Western China(Chongqing)Science CitySchool of Life SciencesSouthwest UniversityChongqing 400715China State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China Rice Research InstituteSichuan Agricultural UniversityChengdu 611130SichuanChina

Dear Editor,The ability to manipulate single-nucleotide variations(SNVs),multiple-nucleotide variations(MNVs),and structural variations(SVs)in rice genomes is crucial for studying gene function and improving agricultural ***,these manipulations were achieved mainly through homology-directed repair,which has limited efficiency in plants.

关键词： structural editor nucleotide

Wood of trees:Cellular structure,molecular formation,and genetic engineering

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Journal of Integrative Plant Biology 2024年第3期66卷 443-467页

作者： yingying zhu Laigeng Li State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems and College of Ecology Lanzhou UniversityLanzhou 730000China national Key Laboratory of Plant Molecular Genetics CAS Center for Excellence in Molecular Plant SciencesChinese Academy of SciencesShanghai 200032China

Wood is an invaluable asset to human society due to its renewable nature,making it suitable for both sustainable energy production and material ***,wood derived from forest trees plays a crucial role in sequestering a significant portion of the carbon dioxide fixed during photosynthesis by terrestrial ***,with the expansion of the global population and ongoing industrialization,forest coverage has been substantially decreased,resulting in significant challenges for wood production and *** production practices have changed away from natural forests toward plantation ***,understanding the underlying genetic mechanisms of wood formation is the foundation for developing high-quality,fast-growing plantation *** ideal forest trees for wood production using genetic technologies has attracted the interest of *** studies have been carried out in recent years on the molecular,genetic,and cell-biological mechanisms of wood formation,and considerable progress and findings have been *** studies and findings indicate enormous possibilities and prospects for tree *** review will outline and assess the cellular and molecular mechanisms of wood formation,as well as studies on genetically improving forest trees,and address future development prospects.

关键词： cambium cell wall Populus wood formation xylem

Neddylation is a novel therapeutic target for lupus by regulating double negative T cell homeostasis

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Signal Transduction and Targeted Therapy 2024年第2期9卷 738-750页

作者： yun zhang Lijun Du Chenxi Wang zhangsheng Jiang Qingchi Duan yiping Li zhijun Xie zhixing He yi Sun Lin Huang Liwei Lu Chengping Wen Key Laboratory of Chinese medicine rheumatology of zhejiang Province Research Institute of Chinese Medical Clinical Foundation and ImmunologyCollege of Basic Medical ScienceZhejiang Chinese Medical UniversityHangzhou 310053China Department of General Surgery Sir Run Run Shaw HospitalZhejiang University School of MedicineHangzhou 310016China Cancer Institute(Key Laboratory of Cancer Prevention and Intervention China National Ministry of Education)of the Second Affiliated Hospital and Institute of Translational MedicineZhejiang University School of MedicineHangzhou 310029China Cancer Center of zhejiang University Hangzhou 310029China Department of Pathology and Shenzhen Institute of Research and Innovation The University of Hong KongHong KongChina Chongqing International Institute for Immunology Chongqing 400038China

Systemic lupus erythematosus(SLE),a severe autoimmune disorder,is characterized by systemic inflammatory response,autoantibody accumulation and damage to *** dysregulation of double-negative(DN)T cells is considered as a crucial commander during ***,a significant type of protein post-translational modification(PTM),has been well-proved to regulate T cell-mediated immune ***,the function of neddylation in SLE is still ***,we reported that neddylation inactivation with MLN4924,a specific inhibitor of NEDD8-activating enzyme E1(NAE1),or genetic abrogation of Ube2m in T cells decreased DN T cell accumulation and attenuated murine lupus *** investigations revealed that inactivation of neddylation blocked Bim ubiquitination degradation and maintained Bim level in DN T cells,contributing to the apoptosis of the accumulated DN T cells in lupus *** double knockout(KO)lupus-prone mice(Ube2m-/-Bim-/-lpr)were generated and results showed that loss of Bim reduced Ube2m deficiency-induced apoptosis in DN T cells and reversed the alleviated lupus *** findings identified that neddylation inactivation promoted Bim-mediated DN T cell apoptosis and attenuated lupus ***,we also found that in SLE patients,the proportion of DN T cells was raised and their apoptosis was ***,compared to healthy groups,SLE patients exhibited decreased Bim levels and elevated Cullin1 neddylation ***,the inhibition of neddylation induced Bim-dependent apoptosis of DN T cells isolated from SLE ***,our findings provide the direct evidence about the function of neddylation during lupus,suggesting a promising therapeutic approach for this disease.

关键词： inactivation double finding

CrisprStitch:Fast evaluation of the efficiency of CRISPR editing systems

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Plant Communications 2024年第3期5卷 13-16页

作者： yangshuo Han Guanqing Liu yuechao Wu yu Bao yong zhang Tao zhang Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/zhongshan Biological Breeding Laboratory/Key Laboratory of Plant Functional Genomics of the Ministry of Education Agricultural College of Yangzhou UniversityYangzhou 225009China Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Jiangsu Key Laboratory of Crop Genetics and Physiology Yangzhou UniversityYangzhou 225009China Chongqing Key Laboratory of Plant Resource Conservation and Germplasm Innovation Integrative Science Center of Germplasm Creation in Western China(Chongqing)Science CitySchool of Life SciencesSouthwest UniversityChongqing 400715China

Dear Editor,Targeted genome-editing technology using designed nucleases has been rapidly advancing and catalyzing significant breakthroughs in the life ***-designed CRISPR editing experiments can be efficiently evaluated through nextgeneration sequencing(NGS).Nevertheless,NGS data analysis currently lacks a user-friendly pipeline capable of automatically calculating mutations and evaluating editing efficiency in bulk,as well as providing a more comprehensive visualization of results.

关键词： breakthrough editing efficiency

A DNA Force Circuit for Exploring Protein-Protein Interactions at the Single-Molecule Level

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Chinese Journal of Chemistry 2024年第13期42卷 1456-1464页

作者： Kangkang Ma Luoan Xiong zhuofei Wang Xin Hu Lihua Qu Xuetong zhao yao Li zhongbo yu State Key Laboratory of Medicinal Chemical Biology Frontiers Science Center for Cell Responsesand College of PharmacyNankai University38 Tongyan RoadTianjin 300350China School of Physics and Key Laboratory of Functional Polymer Materials of Ministry of Education Nankai Universityand Collaborative Innovation Center of Chemical Science and EngineeringTianjin 300071China

Protein-protein interactions(PPls)play a crucial role in drug discovery and disease ***,the development of effective drugs targeting PPls remains challenging due to limited methodologies for probing their spatiotemporal ***,we propose a single-molecule approach using a unique force circuit to investigate Ppl dynamics and anisotropy under mechanical *** conventional techniques,this approach enables the manipulation and real-time monitoring of individual proteins at specific amino acids with defined geometry,offering insights into molecular mechanisms at the single-molecule *** DNA force circuit was constructed using click chemistry conjugation methods and genetic code expansion techniques,facilitating orthogonal conjugation between proteins and nucleic *** SET domain of the MLL1 protein and the tail of histone H3 were used as a model system to demonstrate the application of the DNA force *** the use of atomic force microscopy and magnetic tweezers,optimized assembly procedures were *** DNA force circuit provides an exceptional platform for studying the anisotropy of PPis and holds promise for advancing drug discovery research targeted at PPIs.

关键词： Single-molecule studies Protein-protein interactions Click chemistry Genetic code expansion Molecular dynamics

Design of antiviral AGO2-dependent short hairpin RNAs

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Virologica Sinica 2024年第4期39卷 645-654页

作者： yuanyuan Bie Jieling zhang Jiyao Chen yumin zhang Muhan Huang Leike zhang Xi zhou yang Qiu Key Laboratory of Virology and Biosafety Wuhan Institute of VirologyChinese Academy of SciencesWuhan 430071China State Key Laboratory of Virology Wuhan Institute of VirologyChinese Academy of SciencesWuhan 430071China University of Chinese Academy of sciences Beijing 100049China School of Life sciences Division of Life Sciences and MedicineUniversity of Science and Technology of ChinaHefei 230027China

The increasing emergence and re-emergence of RNA virus outbreaks underlines the urgent need to develop effective *** interference(RNAi)is a sequence-specific gene silencing mechanism that is triggered by small interfering RNAs(siRNAs)or short hairpin RNAs(shRNAs),which exhibits significant promise for antiviral ***2-dependent shRNA(agshRNA)generates a single-stranded guide RNA and presents significant advantages over traditional siRNA and *** this study,we applied a logistic regression algorithm to a previously published chemically siRNA efficacy dataset and built a machine learning-based model with high predictive *** this model,we designed siRNA sequences targeting diverse RNA viruses,including human enterovirus A71(EV71),zika virus(zIKV),dengue virus 2(DENV2),mouse hepatitis virus(MHV)and severe acute respiratory syndrome coronavirus 2(SARS-CoV-2),and transformed them into *** validated the performance of our agshRNA design by evaluating antiviral efficacies of agshRNAs in cells infected with different *** the agshRNA targeting EV71 as an example,we showed that the anti-EV71 effect of agshRNA was more potent compared with the corresponding siRNA and ***,the antiviral effect of agshRNA is dependent on AGO2-processed guide RNA,which can load into the RNA-induced silencing complex(RISC).We also confirmed the antiviral effect of agshRNA in ***,this work develops a novel antiviral strategy that combines machine learning-based algorithm with agshRNA design to custom design antiviral agshRNAs with high efficiency.

关键词： AgshRNA Antiviral strategy Machine learning model

Correlation between circulating T follicular helper cell levels after infection and a decreased risk of COVID-19 re-infection

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Virologica Sinica 2024年第4期39卷 699-701页

作者： Jinzhu Feng zeyu Pu Rong Li y.zhuang Li Xuewen Qin Hui zhang yiwen zhang Institute of Human Virology Department of Pathogen Biology and BiosecurityKey Laboratory of Tropical Disease Control of Ministry of EducationZhongshan School of MedicineSun Yat-sen UniversityGuangzhou510080China

Dear Editor,As mass vaccination has been accomplished worldwide and a growing number of individuals have already been infected by SARS-CoV-2,understanding the incidence of subsequent re-infection is urgently required for comprehending the transmission dynamics of COVID-19(Bobrovitz et al.,2023).Additionally,current SARS-CoV-2 variants cause widespread escape from the neutralizing antibody(nAb)elicited by current ***,durable neutralization and memory B cell responses can be predicted by rapid CD4t T cell responses,particularly strong circulating T follicular helper(cTfh)cell responses,in individuals infected with SARS-CoV-2(Gong et al.,2020;Boppana et al.,2021;Narowski et al.,2022).Although nAb titers are known as predictors of protection against SARS-CoV-2 variants(Khoury et al.,2021),identifying more potential factors that could predict the risk of re-infection following primary infection and vaccination has become quite important in shaping prevention strategies(Chemaitelly et al.,2023).

关键词： infection prevention subsequent

Hourly land surface temperature retrieval over the Tibetan Plateau using Geo-LightGBM framework: Fusion of Himawari-8 satellite, ERA5 and site observations

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Advances in Climate Change Research 2024年第4期15卷 623-635页

作者： zhao-Hua LIU Shan-Shan WENG zhao-Liang zENG Ming-Hu DING ya-Qiang WANG zhehao LIANG Civil and Surveying&Mapping Engineering Jiangxi University of Science and TechnologyGanzhou 341000China State Key Laboratory of Severe Weather Chinese Academy of Meteoroogical sciences Beijing 100081China Space Geodesy and Geoinformation Technical Unviersity of BerlinBerlin 10623Germany

The Tibetan Plateau(TP)is highly sensitive to even minor fluctuations in land surface temperature(LST),which can result in permafrost melting and degradation of alpine grasslands,leading to serious ecological ***,it is crucial to have high-temporal-resolution and seamless hourly estimating and monitoring of LST for a better understanding of climate change on the ***,we employed Himawari-8 satellite,Digital Elevation Model(DEM),ERA5 reanalysis and meteorological station observations data to develop a new LightGBM framework(called Geo-LightGBM)for estimating LST on the TP,and then analyzed the spatiotemporal variations of those ***-LightGBM demonstrated excellent LST estimation accuracy,with an R2(coefficient of determination)of 0.971,RMSE(root-mean-square error)of 2.479℃,and MAE(mean absolute error)of 1.510℃.The estimated LST values for the year 2020 agreed well with observed values,with remarkable differences in hourly LST ***,the estimated LST was more accurate than that from ***,there were two high LST centers,located in the yarlung zangbo River Basin and the Qaidam Basin,and a low LST center located in the central *** SHAP(SHapley Additive exPlanations)and correlation analyses revealed DSCS(the mean ground downward shortwave radiation under clear-sky conditions)to be the most importantly input variable for estimating *** dummy variables(e.g.,longitude,latitude,DEM)were also found to be crucial for model accuracy *** findings indicate the potential for constructing a high-precision and seamless 24-h LST real-time retrieval and monitoring platform for the TP by combining satellite and China's independently developed CLDAS(China Land Data Assimilation System)data in future.

关键词： Tibetan Plateau Himawari-8 ERA5 Land surface temperature Geo-LightGBM

Concerted Steric and Electronic Strategy in Thermostable Salicylaldiminato Nickel Catalysts for Ethylene(Co)polymerization

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Chinese Journal of Polymer science 2024年第8期42卷 1085-1092页

作者： Hong-yu Ji Hong-Liang Mu Chun-Feng Tang yu-Xing zhang yue Chi zhong-Bao Jian Key Laboratory of Advanced Structural Materials Ministry of EducationSchool of Materials Science and EngineeringChangchun University of TechnologyChangchun 130012China State Key Laboratory of Polymer Physics and Chemistry Changchun Institute of Applied ChemistryChinese Academy of SciencesChangchun 130022China

Olefin polymerization is one of the most im portant chemical reactions in *** work presents a strategy that emphasizes the synergistic meta/poro-steric hindrance of N-aryl groups and electronic effects in newly synthesized neutral salicylaldiminato nickel *** nickel(Ⅱ)catalysts exhibit exceptional thermostability,ranging from 30℃to 130℃,demonstrating enhanced catalytic activities and broadly regulated polyethylene molecular weights(3-341 kg·mol^(-1))and controlled polymer branch density(2-102 brs/1000C).The preferred catalyst Ni3 with concerted steric and electronic effects enables the production of solid-state semi-crystalline polyethylene materials at temperatures below 90℃.Notably,Ni3 exhibits an impressive tolerance of 110℃and can withstand even the challenging polymerization temperature of 130℃,leading to the production of polyethylene wax and ***,functionalized polyethylene is produced.

关键词： Polyolefin Salicylaldiminato ligand Nickel catalyst Oil Wax

Inhibition mechanisms of CRISPR-Cas9 by AcrⅡA25.1 and AcrⅡA32

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science China(Life sciences) 2024年第9期67卷 1781-1791页

作者： Jianlin zheng yuwei zhu Tengjin Huang Wenbo Gao Jiale He zhiwei Huang HIT Center for Life sciences School of Life Science and TechnologyHarbin Institute of TechnologyHarbin 150080China Westlake Center for Genome Editing Westlake Laboratory of Life Sciences and BiomedicineSchool of Life SciencesWestlake UniversityHangzhou 310024China

In the ongoing arms race between bacteria and bacteriophages,bacteriophages have evolved anti-CRISPR proteins to counteract bacterial CRISPR-Cas ***,AcrⅡA25.1 and AcrⅡA32 have been found to effectively inhibit the activity of Spy Cas9 both in bacterial and human ***,their molecular mechanisms remain ***,we report the cryo-electron microscopy structures of ternary complexes formed by AcrⅡA25.1 and AcrⅡA32 bound to Spy Cas9-sg *** structural analysis and biochemical experiments,we revealed that AcrⅡA25.1 and AcrⅡA32 recognize a novel,previously-unidentified anti-CRISPR binding site on Spy *** found that both AcrⅡA25.1 and AcrⅡA32 directly interact with the WED domain,where they spatially obstruct conformational changes of the WED and PI domains,thereby inhibiting Spy Cas9 from recognizing protospacer adjacent motif(PAM)and unwinding double-stranded *** addition,they may inhibit nuclease activity by blocking the dynamic conformational changes of the Spy Cas9 surveillance *** summary,our data elucidate the inhibition mechanisms of two new anti-CRISPR proteins,provide new strategies for the modulation of Spy Cas9 activity,and expand our understanding of the diversity of anti-CRISPR protein inhibition mechanisms.

关键词： anti-CRISPR cryo-EM Spy Cas9 AcrⅡA25.1 AcrⅡA32 inhibiton