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Systematic genome editing of the genes spanning an entire chromosome by CRISPR/Cas9 in a vertebrate——zebrafish (Danio rerio)

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Science China(Life Sciences) 2020年第7期63卷 1096-1097页

作者： Yulong Gong Bingyuan Yang wenbiao chen Department of Molecular Physiology&Biophysics Vanderbilt University School of MedicineNashvilleTN 37232USA State Key Laboratory of Freshwater Ecology and Biotechnology Institute of HydrobiologyChinese Academy of SciencesWuhan 430072China University of Chinese Academy of Sciences Beijing 100049China

Deciphering the biological functions of each gene in the genome is fundamental for understanding the molecular mechanisms underlying normal development, physiology,and behavior, as well as diseases. One common approach to determine gene function is to disrupt individual genes and assess the consequences. Zebrafish (Danio rerio) has been gaining popularity as a model organism to analyze gene function. This is particularly true in China.

关键词： Danio rerio Systematic genome editing of the genes spanning an entire chromosome by CRISPR/Cas9 in a vertebrate zebrafish CRISPR

Integrated analysis of human influenza A(H1N1)virus infectionrelated genes to construct a suitable diagnostic model

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BIOCELL 2021年第4期45卷 885-899页

作者： wenbiao chen KEFAN BI JINGJING JIANG XUJUN ZHANG HONGYAN DIAO State Key Laboratory for Diagnosis and Treatment of Infectious Diseases National Clinical Research Center for Infectious DiseasesCollaborative Innovation Center for Diagnosis and Treatment of Infectious DiseasesThe First Affiliated HospitalCollege of MedicineZhejiang UniversityHangzhou310003China

The genome characteristics and structural functions of coding proteins correlate with the genetic diversity of the H1N1 virus,which aids in the understanding of its underlying pathogenic *** this study,analyses of the characteristic of the H1N1 virus infection-related genes,their biological functions,and infection-related reversal drugs were ***,we used multi-dimensional bioinformatics analysis to identify the key genes and then used these to construct a diagnostic model for the H1N1 virus *** was a total of 169 differently expressed genes in the samples between 21 h before infection and 77 h after *** were used during the protein-protein interaction(PPI)analysis,and we obtained a total of 1725 interacting ***,we performed a weighted gene co-expression network analysis(WGCNA)on these genes,and we identified three modules that showed significant potential for the diagnosis of the H1N1 virus *** modules contained 60 genes,and they were used to construct this diagnostic model,which showed an effective prediction ***,these 60 genes were involved in the biological functions of this infectious virus,like the cellular response to type I interferon and in the negative regulation of the viral life ***,20 genes showed an upregulated expression as the infection *** 36 upregulated genes were used to examine the relationship between genes,human influenza A virus,and infection-related reversal *** study revealed numerous important reversal drug molecules on the H1N1 *** included rimantadine,interferons,and shikimic *** study provided a novel method to analyze the characteristic of different genes and explore their corresponding biological function during the infection caused by the H1N1 *** diagnostic model,which comprises 60 genes,shows that a significant predictive value can be the potential biomarker for the diagnosis of the H1N1 virus infection.

关键词： Human influenza A H1N1 virus Gene Diagnosis model

In vivo generation and regeneration ofβcells in zebrafish

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Cell Regeneration 2020年第1期9卷 92-101页

作者： Bingyuan Yang Brittney A.Covington wenbiao chen Department of Molecular Physiology&Biophysics Vanderbilt University School of Medicine2215 Garland AvenueNashvilleTN 37232USA

The pathological feature of diabetes,hyperglycemia,is a result of an inadequate number and/or function of insulin producingβ*** functionalβcells is a strategy to cure the ***β-cell regeneration occurs in animal models under certain conditions,humanβcells are refractory to proliferation.A better understanding of both the positive and the negative regulatory mechanisms ofβ-cell regeneration in animal models is essential to develop novel strategies capable of inducing functionalβcells in *** are an attractive model system for studyingβ-cell regeneration due to the ease to which genetic and chemical-genetic approaches can be used as well as their high regenerative ***,we highlight the current state ofβ-cell regeneration studies in zebrafish with an emphasis on cell signaling mechanisms.

关键词： βcell attractive fish

Boron nitride microribbons strengthened and toughened alumina composite ceramics with excellent mechanical,dielectric,and thermal conductivity properties

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Journal of Advanced Ceramics 2024年第4期13卷 496-506页

作者： Jilin Wang Dongping Lu Weiping Xuan Yuchun Ji Ruiqi chen Shaofei Li wenbiao Li Wenzhuo chen Shilin Tang Guoyuan Zheng Fei Long Guangxi Key Laboratory of Optical and Electronic Materials and Devices Collaborative Innovation Center for Exploration of Nonferrous Metal Deposits and Efficient Utilization of ResourcesSchool of Materials Science and EngineeringGuilin University of TechnologyGuilin 541004China Key Laboratory of New Processing Technology for Nonferrous Metals and Materials of Ministry of Education Guilin University of TechnologyGuilin 541004China School of Materials Science and Engineering Peking UniversityBeijing 100871China Department of Civil and Environmental Engineering The Hong Kong Polytechnic UniversityKowloon 999077Hong KongChina

Aluminum oxide(Al_(2)O_(3))ceramics have been widely utilized as circuit substrates owing to their exceptional *** this study,boron nitride microribbon(BNMR)/Al_(2)O_(3)composite ceramics are prepared using spark plasma sintering(SPS).This study examines the effect of varying the amount of toughened phase BNMR on the density,mechanical properties,dielectric constant,and thermal conductivity of BNMR/Al_(2)O_(3)composite ceramics while also exploring the mechanisms behind the toughening and increased thermal conductivity of the fabricated *** results showed that for a BNMR content of 5 wt%,BNMR/Al_(2)O_(3)composite ceramics displayed more enhanced characteristics than pure Al_(2)O_(3)*** particular,the relative density,hardness,fracture toughness,and bending strength were 99.95%±0.025%,34.11±1.5 GPa,5.42±0.21 MPa·m^(1/2),and 375±2.5 MPa,*** values represent increases of 0.76%,70%,35%,and 25%,respectively,compared with the corresponding values for pure Al_(2)O_(3)***,during the SPS process,BNMRs are subjected to high temperatures and pressures,resulting in the bending and deformation of the Al_(2)O_(3)matrix;this leads to the formation of special thermal pathways within *** dielectric constant of the composite ceramics decreased by 25.6%,whereas the thermal conductivity increased by 45.6%compared with that of the pure Al_(2)O_(3)*** results of this study provide valuable insights into ways of enhancing the performance of Al_(2)O_(3)-based ceramic substrates by incorporating novel BNMRs as a second *** improvements are significant for potential applications in circuit substrates and related fields that require high-performance materials with improved mechanical properties and thermal conductivities.

关键词： boron nitride microribbons/aluminum oxide(BNMRs/Al_(2)O_(3))composite ceramics boron nitride microribbon(BNMR) spark plasma sintering(SPS) strengthening and toughening thermal conductivity

Structural effects of sulfonamides on the proliferation dynamics of sulfonamide resistance genes in the sequencing batch reactors and the mechanism

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Journal of Environmental Sciences 2024年第1期135卷 161-173页

作者： Ligui Wu Mingyu Wang Lingling Rong wenbiao Wang Linwei chen Qiaofeng Wu Haoyu Sun Xiangfeng Huang Xiaoming Zou College of Environmental Science and Engineering Tongji UniversityShanghai 200092China School of Life Science Jinggangshan UniversityJi’an 343009China Key Laboratory of Organic Compound Pollution Control Engineering(MOE) School of Environmental and Chemical EngineeringShanghai UniversityShanghai 200444China Fuzhou Urban and Rural Construction Group Co.Ltd. Fuzhou 350007China

Antibiotic resistance genes(ARGs)can be easily promoted by antibiotics,however,the structural effects of antibiotics on the proliferation of ARGs dynamic and the associated mechanisms remain obscure in,especially,activated sludge sequencing batch *** the present study,the effects of 9 sulfonamides(SAs)with different structures on the proliferation dynamic of sulfonamide resistance genes(Suls)in the activated sludge sequencing batch reactors and the corresponding mechanisms were determined(30 days),and the results showed that the largest proliferation value(ΔA^(R))of Suls dynamic for SAs(sulfachloropyridazine)was approximately 2.9 times than that of the smallest one(sulfadiazine).The proliferation of Suls was significantly related to the structural features(minHBint6,SssNH,SHBd and SpMax2_Bhm)that represent the biological activity of *** interpret the phenomenon,a mechanistic model was developed and the results indicated that the biodegradation of SAs(T_(1/2))rather than conjugative transfer frequency or mutation frequency tends to be the key process for affecting Suls proliferation.T_(1/2)was proved to be dependent on the interactions between SAs and receptors(E_(binding)),the cleavage mode(bond dissociation energy),and the site of nucleophilic ***,the metagenomic analysis showed that SAs posed significant effect on antibiotic resistome and Tnp31 played a vital role in the proliferation of ***,our findings provide important insight into a theoretical basis for understanding the structural effects of SAs on the proliferation of ARGs in SBR systems.

关键词： Activated sludge Sulfonamides Suls Proliferation Mechanism

Tuning interfacial charge transfer for efficient visible-light-driven photodegradation and simultaneous H_(2)evolution

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Journal of Materials Science & Technology 2024年第1期168卷 35-49页

作者： Zhiyang Li Yaogang chen Yinghe Zhang Wei Ai Qian Lei Tingjun Yao Dan Zhong Wenjie Liu wenbiao Jin Lei Yang State Key Laboratory of Urban Water Resource and Environment Shenzhen Key Laboratory of Organic Pollution Prevention and ControlSchool of Civil and Environmental EngineeringHarbin Institute of Technology ShenzhenShenzhen 518055China Key Laboratory of Northwest Water Resources Environment and EcologyMinistry of EducationSchool of Environmental and Municipal EngineeringXi’an University of Architecture and TechnologyXi’an 710055China CNAS Accredited Test Center Guangdong Engineering Technology Research Center of Air PurificationHealthlead Co.Ltd.Shenzhen 518055China School of Science Harbin Institute of Technology ShenzhenShenzhen 518055China

The edge-graphitized carbon nitride(C_(3)N_(4)-C g)was prepared by secondary pyrolysis to construct ZnO/C_(3)N_(4)-C g(ZCN)type-Ⅱheterojunction photocatalyst via a facile sonication dispersion method,which achieved∼7.04-fold and∼18.3-fold enhanced visible-light-driven photocatalytic performance for refrac-tory micropollutant removal and simultaneous hydrogen(H_(2))evolution respectively compared to con-ventional ZnO/g-C_(3)N_(4)Step-scheme *** apparent quantum efficiency of the ZCN_(0.4)het-erojunction reaches 0.92%(λ=420 nm).Such excellent performance stems from that the edge-graphene moieties stitched onto the interface of heterojunction extend light absorption to the full visible spec-trum,meanwhile,the built-in electric field generated during Fermi level alignment accompanying fa-vorable band-bending structure provides an effective pathway for the rapid migration of photoinduced electrons via the edge graphene channel to improve interfacial charge separation ***,the midgap states introduced in ZCN heterojunction could temporarily retain photoexcited electrons to effectively inhibit the in situ carrier recombination for improved photocatalytic H_(2)***,ZCN/peroxymonosulfate system exhibited excellent anti-interference performance against complex water bodies under visible illumination due to the synergistic effect between the co-existing anions and organic ***,the eco-friendly nature of the ZCN/peroxymonosulfate system showed no biotoxicity of reaction filtrate on cell proliferation after treatment,which avoided secondary ***-ering the outstanding performance in photocatalysis,the ZCN system exhibits broad potential for practical applications in water pollution control and green energy production.

关键词： ZnO C_(3)N_(4)-C g Heterojunction Photodegradation Hydrogen evolution

Highly dispersed Ru nanospecies on N-doped carbon/MXene composite for highly efficient alkaline hydrogen evolution

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Chinese Chemical Letters 2024年第4期35卷 153-159页

作者： Minying Wu Xueliang Fan wenbiao Zhang Bin chen Tong Ye Qian Zhang Yuanyuan Fang Yajun Wang Yi Tang Department of Chemistry Shanghai Key Laboratory of Molecular Catalysis and Innovative Materialsand Laboratory of Advanced MaterialsFudan UniversityShanghai 200438China College of Chemistry&Materials Engineering Wenzhou UniversityWenzhou 325027China

Hydrogen has emerged as a promising environmentally friendly energy source. The development of lowcost, highly active, stable, and easily synthesized catalysts for hydrogen evolution reactions(HER) remains a significant challenge. This study explored the synthesis of nitrogen-doped MXene-based composite catalysts for enhanced HER performance. By thermally decomposing RuCl_(3) coordinated with melamine and formaldehyde resin, we successfully introduced nitrogen-doped carbon(N–C) with highly dispersed ruthenium(Ru) onto the MXene surface. The calcination temperature played a crucial role in controlling the size of Ru nanoparticles(Ru NPs) and the proportion of Ru single-atom(Ru SA), thereby facilitating the synergistic enhancement of HER performance by Ru NPs and Ru SA. The resulting catalyst prepared with a calcination temperature of 600℃, Ti_(3)C_(2)T_x-N/C-Ru-600(TNCR-600), exhibited exceptional HER activity(η10= 17 m V) and stability(160 h) under alkaline conditions. This work presented a simple and effective strategy for synthesizing composite catalysts, offering new insights into the design and regulation of high-performance Ru-based catalysts for hydrogen production.

关键词： HER activity Highly dispersed Ru-based catalysts MXene Alkaline condition

Chromosome-level assembly of triploid genome of Sichuan pepper(Zanthoxylum armatum)

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Horticultural Plant Journal 2024年第2期10卷 437-449页

作者： Lizhi Song Yue Huang Hao Zuo Ning Tang Zhengguo Li wenbiao Jiao Feng Xu Qiang Xu Zexiong chen National Key Laboratory for Germplasm Innovation and Utilization for Fruit and Vegetable Horticultural Crops Huazhong Agricultural UniversityWuhanHubei 430070China Chongqing Key Laboratory of Economic Plant Biotechnology Chongqing University of Arts and SciencesChongqing 402160China School of Life Sciences Chongqing UniversityChongqing 400030China College of Horticulture and Gardening Yangtze UniversityJingzhouHubei 434025China College of Informatics Huazhong Agricultural UniversityWuhanHubei 430070China

As an important spice species in Rutaceae, the Sichuan pepper (Zanthoxylum armatum) can provide pungent and numbing taste, as well as aroma in its mature fruit. Here we assembled a chromosome-level genome of green prickly ash which was widely cultivated in a major production area including Chongqing and Sichuan province, China. We generated 712 Gb (~112×) PacBio long reads and 511 Gb (~82×) Hi-C data, and yielded an assembly of 99 pseudochromosomes with total size of 5.32 Gb and contig N50 of 796 kb. The genomic analyses and cytogenetic experiments both indicated that the cultivarZhuye Huajiao’ was a triploid. We identified a Zanthoxylum-specific whole genome duplication event emerging about 24.8 million years ago (Mya). We also detected a transposition burst event (0.3-0.4 Mya) responsible for the large genome size of Z. armatum. Metabolomic analysis of the Zanthoxylum fruits during development stages revealed profiles of39 volatile aroma compounds and 528 secondary metabolites, from which six types of sanshools were identified. Based on metabolomic and transcriptomic network analysis, we screened candidate genes encoding long chain acyl-CoA synthetase, fatty acid desaturase,branched-chain amino acid aminotransferase involved in sanshool biosynthesis and three genes encoding terpene synthase during fruit development. The multi-omics data provide insights into the evolution of Zanthoxylum and molecular basis of numbing and aroma flavor of Sichuan pepper.

关键词： Zanthoxylum armatum Genome Sanshool Terpenoid

TaRLK-6A promotes Fusarium crown rot resistance in wheat

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Journal of Integrative Plant Biology 2024年第1期66卷 12-16页

作者： Haijun Qi Xiuliang Zhu wenbiao Shen Xia Yang Chaozhong Zhang Genying Li Feng chen Xuening Wei Zengyan Zhang Institute of Special Animal and Plant Sciences Chinese Academy of Agricultural SciencesChangchun 130000China The National Key Facility for Crop Gene Resources and Genetic Improvement Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China College of Life Science Nanjing Agricultural UniversityNanjing 210095China Agronomy College/National Key Laboratory of Wheat and Maize Crop Science/CIMMYT‐China(Henan)Joint Center of Wheat and Maize Henan Agricultural UniversityZhengzhou 450002China Department of Plant Sciences University of CaliforniaDavisCA 95616USA Crop Research Institute Shandong Academy of Agricultural SciencesJinan 250100China

Fusariumcrown rot(FCR),mainly caused by the soil‐borne fungus Fusarium pseudograminearum,is a devastatingdisease of wheat(Triticum aestivum(Ta)).Fusariumcrown rotcauses substantial yield losses and generates mycotoxins inwheat grains that can cause serious health problems in hu-mans and livestock(Powell et al.,2017).Identifying genes thatprovide resistance *** character-izing the molecular mechanisms underlying such resistance arekey to breeding wheat varieties that are resistant to this dev-astating fungus.

关键词： aestivum breeding soil