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Progress in Natural science:Materials International 2009年第5期19卷 563-572页

作者： longguo jin, bo huang,{2., jinyuan liu laboratory of molecular biology and moe laboratory of protein science, department of biological sciences and biotechnology, tsinghua university, Beijing 100084. china [a]laboratory of molecular {2. and moe laboratory of protein science Department of Biological Sciences and Biotechnology Tsinghua University Beijing 100084 China

Plant AP2.EREBP transcription factors play important roles in plant development and in plant responses to biotic and abiotic stresses. A novel gene for ethylene-responsive element binding protein (EREBP), designated GhERF5, which encodes a protein of 2.5 amino acids, was isolated by RACE-PCR from cotton (Gossypium hirsutum) seed{2.ngs. Sequence a{2.gnment revealed that GhERF5 contains a typical AP2.ERF domain, and belongs to the B3 subgroup of the ERF subfamily. Particle bombardment assay showed that GhERF5 functions as an in vivo transcription activator in tobacco cells, and it is located in the nuclei of onion epidermis cells. Semi-quantitative RT-PCR revealed that the expression of GhERF5 was highly and rapidly induced when plants were treated with exogenous ethylene, abscisic acid (ABA), salt, cold and drought. Promoter analysis indicated that there are conserved cis-acting elements induced by these stresses in the 50-upstream region of the GhERF5 gene. These results suggest that the GhERF5 gene might play an important role in cotton response to ethylene, ABA and environmental stresses.

关键词： Ethylene-responsive element binding factor (ERF) Abiotic stresses Nuclear localization Transactivation Gossypium hirsutum

molecular cloning and functional characterization of a DREB1/CBF-like gene (GhDREB1L) from cotton

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science china({2.fe sciences) 2007年第1期50卷 7-14页

作者： huang bo, {2. longguo & liu jinyuan laboratory of molecular biology and protein science laboratory of the Ministry of Education,{12., tsinghua university, Bei{2.g 100084. china 1. laboratory of molecular {2. and protein science laboratory of the Ministry of Education Department of Biological Sciences and Biotechnology Tsinghua University Beijing 100084 China

The transcription factors DREB1s/CBFs play important roles in the regulation of plant resistance to environmental stresses and are quite useful for generating transgenic plants tolerant to these stresses. In the present work, a cDNA encoding DREB1/CBF-like protein (GhDREB1L) from cotton was isolated, and its sequence features, DNA binding preference, and expression patterns of the transcripts were also characterized. GhDREB1L contained one conserved AP2.ERF domain and its amino acid sequence was similar to the DREB1/CBF group of the DREB family from other plants. The DNA-binding domain of GhDREB1L was successfully expressed as a fusion protein in Escherichia coli BL2. (DE3) and purified by Ni-NTA affinity chromatography. Electrophoretic mobility shift assay revealed that the purified GhDREB1L fusion protein had a specific binding activity with the previously characterized DRE ele-ment (core sequence, ACCGAC) and also with the DRE-like sequence (core sequence, GCCGAC) in the promoter of the dehydration-responsive late embryogenesis-abundant gene LEA D113. Semi-quantita- tive RT-PCR showed that GhDREB1L was induced in the cotton cotyledons by low temperature, as well as drought and NaCl treatments. These results suggested that the novel cotton GhDREB1L might play an important role in response to low temperature as well as drought and high salinity through binding to the DRE cis-element.

关键词： cotton DREB1/CBF cold dehydration LEA D113

Proteomics and Biochemical Studies Reveal Conserved and Unique Processes of Cotton Fiber Early Development in Gossypium Hirsutum *** 142.and its Fibreless Mutant (fl)

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Proteomics and Biochemical Studies Reveal Conserved and Uniq...

Small-molecule agents for cancer immunotherapy

2.08年全国生物化学与分子生物学学术大会

作者： jin-yuan liu Yuan Yao Ying Du ({2. of molecular biology and moe {2. of protein science.department of biological sciences and {12.,tsinghua university Beijing 100084.P.R.china.)

Comprehensive analyses combined proteomics with molecular and biochemical approaches were performed to explore the mechanism of cotton fiber cell initiation in Gossypium hirsutum *** 142.(xz142. and its fibreless mutant (fl).At beginning,the temporal changes of global ovules proteomes at five representative initiation stages (-3 to +3 days post-anthesis) were compared in wild-type and its fibreless mutant using 2.D

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Acta Pharmaceutica Sinica B 2024年第3期14卷 905-952页

作者： Fang Wang Kai Fu Yujue Wang Can Pan Xueping Wang Zeyu liu Chuan Yang Ying Zheng Xiaopeng li Yu Lu Kenneth Kin Wah To Chenglai Xia Jianye Zhang Zhi Shi Zeping Hu Min {2. liwu Fu State Key laboratory of Oncology in South china Collaborative Innovation Center for Cancer MedicineGuangdong Esophageal Cancer InstituteGuangdong Provincial Clinical Research Center for CancerSun Yat-sen University Cancer CenterGuangzhou 510060China School of Pharmaceutical sciences Tsinghua-Peking Center for Life SciencesBeijing Frontier Research Center for Biological StructureTsinghua UniversityBeijing 100084China State Key laboratory of Drug Research Shanghai Institute of Materia MedicaChinese Academy of SciencesShanghai 201203China department of Cell biology&Institute of Biomedicine National Engineering Research Center of Genetic MedicineMOE Key Laboratory of Tumor Molecular BiologyGuangdong Provincial Key Laboratory of Bioengineering MedicineCollege of Life Science and TechnologyJinan UniversityGuangzhou 510632China Guangzhou Municipal and Guangdong Provincial Key laboratory of molecular Target&C{2.nical Pharmacology NMPA and State Key Laboratory of Respiratory DiseaseSchool of Pharmaceutical Sciences and the Fifth Affiliated HospitalGuangzhou Medical UniversityGuangzhou 511436China School of Pharmacy The Chinese University of Hong KongHong Kong 999077China Affiliated Foshan Maternity and Child Healthcare Hospital Southern Medical UniversityFoshan 528000China

Cancer immunotherapy,exemplified by the remarkable clinical benefits of the immune checkpoint blockade and chimeric antigen receptor T-cell therapy,is revolutionizing cancer *** induce long-term tumor regression and overall survival benefit in many types of *** the advances in our knowledge a{2.ut the tumor immune microenvironment,remarkable progress has been made in the development of small-molecule drugs for *** molecules targeting PRR-associated pathways,immune checkpoints,oncogenic signaling,meta{2.lic pathways,cytokine/chemokine signaling,and immune-related kinases have been extensively *** of smallmolecule immunotherapeutic drugs and their combinations with other antitumor modalities are under active clinical investigations to overcome immune tolerance and circumvent immune checkpoint inhibitor ***,we review the latest development of small-molecule agents for cancer immunotherapy by targeting defined pathways and highlighting their progress in recent clinical investigations.

关键词： Cancer immunotherapy Small-molecule agents Immune checkpoints Oncogenic signaling Metabolic pathways Cytokine/chemokine signaling Antitumor immunity Tumor immune microenvironment

Insights and implications of sexual dimorphism in osteoporosis

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bone Research 2024年第1期12卷 20-49页

作者： Yuan-Yuan Zhang Na Xie Xiao-Dong Sun Edouard C.Nice Yih-Cherng liou Canhua huang {2.li Zhu Zhisen Shen Key laboratory of Drug-Targeting and Drug Delivery System of the Education Ministry and Sichuan Province Sichuan Research Center for Drug Precision Industrial TechnologyWest China School of PharmacySichuan UniversityChengdu 610041China West china School of Basic Medical sciences&Forensic Medicine Sichuan UniversityChengdu 610041China department of Biochemistry and molecular {2. Monash UniversityClaytonVIC 3800Australia department of biological {2. Faculty of ScienceNational University of SingaporeSingapore 117543Republic of Singapore department of Biotherapy Cancer Center and State Key Laboratory of BiotherapyWest China Hospitaland West China School of Basic Medical Sciences&Forensic MedicineSichuan UniversityChengdu 610041China Key laboratory of Birth Defects and Related Diseases of Women and Children of Ministry of Education Department of Reproductive MedicineWest China Second University Hospital of Sichuan UniversityChengduChina department of Otorhinolaryngology and Head and Neck Surgery The Affiliated Lihuili HospitalNingbo University315040 NingboZhejiangChina

Osteoporosis,a metabolic bone disease characterized by low bone mineral density and deterioration of bone microarchitecture,has led to a high risk of fatal osteoporotic fractures *** evidence has revealed that sexual dimorphism is a notable feature of osteoporosis,with sex-specific differences in epidemiology and ***,females are more susceptible than males to osteoporosis,while males are more prone to disability or death from the *** date,sex chromosome abnormalities and steroid hormones have been proven to contribute greatly to sexual dimorphism in osteoporosis by regulating the functions of bone *** the sex-specific differences in osteoporosis and its related complications is essential for improving treatment strategies tailored to women and *** literature review focuses on the mechanisms underlying sexual dimorphism in osteoporosis,mainly in a population of aging patients,chronic glucocorticoid administration,and ***,we highlight the implications of sexual dimorphism for developing therapeutics and preventive strategies and screening approaches tailored to women and ***,the challenges in translating bench research to bedside treatments and future directions to overcome these obstacles will be discussed.

关键词： osteoporosis epidemiology overcome

Single-cell omics:experimental workflow,data analyses and applications

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science china {2.fe sciences 2024年

作者： Fengying Sun Haoyan li Dongqing Sun Shaliu Fu Lei Gu Xin Shao Qinqin Wang Xin Dong Bin Duan Feiyang Xing Jun Wu Minmin Xiao Fangqing Zhao {2.g-Dong J.Han Qi liu Xiaohui Fan Chen li Chenfei Wang Tieliu Shi Center for Bioinformatics and Computational biology Shanghai Key Laboratory of Regulatory Biology the Institute of Biomedical Sciences and School of Life Sciences East China Normal University Beijing Institutes of life {2. Chinese Academy of Sciences Peking-tsinghua Center for life {2. Academy for Advanced Interdisciplinary Studies Center for Quantitative Biology (CQB) Peking University Zhejiang Key laboratory of Precision Diagnosis and Therapy for Major Gynecological Diseases Women’s Hospital Zhejiang University School of Medicine Key laboratory of Advanced Theory and Application in Statistics and Data {2.-moe School of Statistics East China Normal University Shanghai 200062 China department of Clinical {2. the Affiliated Wuhu Hospital of East China Normal University (The Second People's Hospital of Wuhu City) Pharmaceutical Informatics Institute College of Pharmaceutical Sciences Zhejiang University Key laboratory of Spine and Spinal Cord Injury Repair and Regeneration (Tongji university) Ministry of Education Orthopaedic Department Tongji Hospital Bioinformatics Department School of Life Sciences and Technology Tongji University Frontier science Center for Stem Cells School of Life Sciences and Technology Tongji University Translational Medical Center for Stem Cell Therapy and Institute for Regenerative Medicine Shanghai East Hospital Bioinformatics Department School of Life Sciences and Technology Tongji University Research Institute of Intelligent Computing Zhejiang Lab Shanghai Research Institute for Intelligent Autonomous Systems Center for Single-cell Omics School of Public Health Shanghai Jiao Tong University School of Medicine National Key laboratory of Chinese Medicine Modernization Innovation Center of Yangtze River Delta Zhejiang University

Cells are the fundamental units of biological systems and exhibit unique development trajectories and molecular features. Our exploration of how the genomes orchestrate the formation and maintenance of each cell, and control the cellular phenotypes of various organismsis, is {2.th captivating and intricate. Since the inception of the first single-cell RNA technology, technologies related to single-cell sequencing have experienced rapid advancements in recent years. These technologies have expanded horizontally to include single-cell genome, epigenome,proteome, and meta{2.lome, while vertically, they have progressed to integrate multiple omics data and incorporate additional information such as spatial scRNA-seq and CRISPR screening. Single-cell omics represent a groundbreaking advancement in the biomedical field,offering profound insights into the understanding of complex diseases, including cancers. Here, we comprehensively summarize recent advances in single-cell omics technologies, with a specific focus on the methodology section. This overview aims to guide researchers in selecting appropriate methods for single-cell sequencing and related data analysis.

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NeoHunter:Flexible software for systematically detecting neoantigens from sequencing data

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Quantitative biology 2024年第1期12卷 70-84页

作者： Tianxing Ma Zetong Zhao Haochen li Lei Wei Xuegong Zhang moe Key Lab of Bioinformatics Bioinformatics Division of BNRIST and Department of AutomationTsinghua UniversityBeijingChina School of Medicine Tsinghua UniversityBeijingChina School of life sciences Tsinghua UniversityBeijingChina

Complicated molecular alterations in tumors generate various mutant *** of these mutant peptides can be presented to the cell surface and then elicit immune responses,and such mutant peptides are called *** detection of neoantigens could help to design personalized cancer *** some computational frameworks for neoantigen detection have been proposed,most of them can only detect SNV-and indel-derived *** addition,current frameworks adopt oversimplified neoantigen prioritization *** factors hinder the comprehensive and effective detection of *** developed NeoHunter,flexible software to systematically detect and prioritize neoantigens from sequencing data in different *** can detect not only SNV-and indel-derived neoantigens but also gene fusion-and aberrant splicing-derived *** supports both direct and indirect immunogenicity evaluation strategies to prioritize candidate *** strategies utilize binding characteristics,existing biological big data,and T-cell receptor specificity to ensure accurate detection and *** applied NeoHunter to the TESLA dataset,cohorts of melanoma and non-small cell lung cancer *** achieved high performance across the TESLA cancer patients and detected 79%(2. out of 34)of validated neoantigens in ***-and indel-derived neoantigens accounted for 90%of the top 100 candidate neoantigens while neoantigens from aberrant splicing accounted for 9%.Gene fusion-derived neoantigens were detected in one *** is a powerful tool to‘catch all’neoantigens and is available for free academic use on Github(XuegongLab/NeoHunter).

关键词： cancer vaccine molecular alteration neoantigen neoantigen prioritization

molecular functions of nitric oxide and its potential applications in horticultural crops

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Horticulture Research 2021年第1期8卷 1123-1139页

作者： Chengliang Sun Yuxue Zhang lijuan {2. Xiaoxia {2. Baohai li Chongwei jin Xianyong lin moe Key laboratory of Environment Remediation and Ecological Health College of Environmental&Resource SciencesZhejiang University310058 HangzhouChina Interdisciplinary Research Academy Zhejiang Shuren University310015 HangzhouChina Zhejiang Provincial Cultivated Land Quality and Fertilizer Administration Station HangzhouChina

Nitric oxide(NO)regulates plant growth,enhances nutrient uptake,and activates disease and stress tolerance mechanisms in most plants,making NO a potential tool for use in improving the yield and quality of horticultural crop *** the use of NO in horticulture is still in its infancy,research on NO in model plant species has provided an abundance of valuable information on horticultural crop *** evidence implies that the bioactivity of NO can occur through many potential mechanisms but occurs mainly through S-nitrosation,the covalent and reversible attachment of NO to cysteine *** this context,NO signaling specifically affects crop development,immunity,and environmental ***,NO can act as a fumigant against a wide range of postharvest diseases and ***,for effective use of NO in horticulture,both understanding and exploring the biological significance and potential mechanisms of NO in horticultural crop species are *** review provides a picture of our current understanding of how NO is synthesized and transduced in plants,and particular attention is given to the significance of NO in breaking seed dormancy,balancing root growth and development,enhancing nutrient acquisition,mediating stress responses,and guaranteeing food safety for horticultural production.

关键词： potential culture molecular

Nucleic acids analysis

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science china Chemistry 2021年第2期64卷 171-203页

作者： Yongxi Zhao Xiaolei Zuo Qian li Feng Chen Yan-Ru Chen jinqi Deng Da Han Changlong Hao Fujian {2. Yanyi {2. Guoliang Ke Hua Kuang Fan li Jiang li Min li Na li Zhenyu lin Dingbin liu Juewen liu libing liu Xiaoguo liu Chunhua Lu Fang Luo Xiuhai Mao Jiashu Sun bo Tang Fei Wang Jianbin Wang lihua Wang Shu Wang lingling Wu Zai-Sheng Wu Fan Xia Chuanlai Xu Yang Yang Bi-Feng Yuan Quan Yuan Chao Zhang Zhi Zhu Chaoyong Yang Xiao-Bing Zhang {2.hao Yang Weihong Tan Chunhai Fan Institute of Analytical Chemistry and Instrument for life science The Key Laboratory of Biomedical Information Engineering of Ministry of EducationSchool of Life Science and TechnologyXi’an Jiaotong UniversityXi’an 710049China Institute of molecular Medicine Shanghai Key Laboratory for Nucleic Acid Chemistry and NanomedicineRenji HospitalSchool of MedicineShanghai Jiao Tong UniversityShanghai 200127China School of Chemistry and Chemical Engineering Frontiers Science Center for Transformative MoleculesInstitute of Translational MedicineShanghai Jiao Tong UniversityShanghai 200240China Cancer Metastasis Alert and Prevention Center Fujian Provincial Key Laboratory of Cancer Metastasis Chemoprevention and ChemotherapyState Key Laboratory of Photocatalysis on Energy and EnvironmentCollege of ChemistryFuzhou UniversityFuzhou 350108China CAS Key laboratory of Standardization and Measurement for Nanotechnology CAS Center for Excellence in NanoscienceNational Center for Nanoscience and TechnologyBeijing 100190China State Key Lab of Food science and Technology International Joint Research Laboratory for Biointerface and BiodetectionSchool of Food Science and TechnologyJiangnan UniversityWuxi 214122China Faculty of Materials science and Chemistry Engineering Research Center of Nano-Geomaterials of Ministry of EducationChina University of GeosciencesWuhan 430074China College of Chemistry and molecular Engineering Biomedical Pioneering Innovation Center(BIOPIC)Beijing Advanced Innovation Center for Genomics(ICG)Peking-Tsinghua Center for Life SciencesPeking UniversityBeijing 100871China State Key laboratory of Chemo/Biosensing and Chemometrics College of Chemistry and Chemical EngineeringHunan UniversityChangsha 410082China Division of Physical biology CAS Key Laboratory of Interfacial Physics and TechnologyShanghai Institute of Applied PhysicsChinese Academy of SciencesShanghai 201800China Bioimaging Center Shanghai Synchrotron Radiation FacilityZhangjiang LaboratoryShanghai Advanced

Nucleic acids are natural biopolymers of nucleotides that store, encode, transmit and express genetic information, which play central roles in diverse cellular events and diseases in living things. The analysis of nucleic acids and nucleic acids-based analysis have been widely applied in {2. studies, clinical diagnosis, environmental analysis, food safety and forensic *** the past decades, the field of nucleic acids analysis has been rapidly advancing with many technological *** this review, we focus on the methods developed for analyzing nucleic acids, nucleic acids-based analysis, device for nucleic acids analysis, and applications of nucleic acids analysis. The representative strategies for the development of new nucleic acids analysis in this field are summarized, and key advantages and possible limitations are discussed. Finally, a brief perspective on existing challenges and further research development is provided.

关键词： nucleic acids analysis signal amplification DNA nanotechnology aptamer biosensing

Design of ultrahigh-affinity and dual-specificity peptide antagonists of MDM2.and MDMX for P53 activation and tumor suppression

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Acta Pharmaceutica Sinica B 2021年第9期11卷 2655-2669页

作者： Xiang li Neelakshi Gohain Si Chen Yinghua li Xiaoyuan Zhao {2. li William D.Tolbert Wangxiao He Marzena Pazgier Honggang Hu Wuyuan Lu School of Pharmacy Second Military Medical UniversityShanghai 200433China Institute of Human Virology and department of Biochemistry and molecular {2. University of Maryland School of MedicineBaltimoreMD 21201USA School of Medicine Shanghai UniversityShanghai 200444China Institute of Translational Medicine Shanghai UniversityShanghai 200444China State Key laboratory of Rare Earth Resource Utilization Changchun Institute of Applied ChemistryChinese Academy of SciencesChangchun 130022China department of Talent Highland the First Affiliated Hospital of Xi’an Jiaotong UniversityXi’an 710061China Key laboratory of Medical molecular Virology({2./NHC/CAMS)of School of Basic Medical sciences and Shanghai Institute of Infectious Disease and Biosecurity of School of Public Health Fudan UniversityShanghai 200032China

Peptide inhibition of the interactions of the tumor suppressor protein P53 with its negative regulators MDM2.and MDMX activates P53 in vitro and in vivo,representing a viable therapeutic strategy for cancer *** phage display techniques,we previously identified a potent peptide activator of P53,termed PMI(TSFAEYWNLLSP),with binding affinities for both MDM2.and MDMX in the low nanomolar concentration *** we report an ultrahigh affinity,dual-specificity peptide antagonist of MDM2.and MDMX obtained through systematic mutational analysis and additivitybased {2. *** assays of over 100 peptide analogs of PMI using surface plasmon resonance and fluorescence polarization techniques yielded a dodecameric peptide termed PMI-M3(LTFLEYWAQLMQ)that bound to MDM2.and MDMX with K_(d)values in the low picomolar concentration range as verified by isothermal titration ***-crystal structures of MDM2.and of MDMX in complex with PMI-M3 were solved at 1.65 and 3.0 A resolution,*** to PMI,PMI-M3 occupied the P53-binding pocket of MDM2.MDMX,which was dominated energetically by inter{2. interactions involving Phe3,Tyr6,Trp7,and Leu *** differences in binding between PMI-M3 and PMI were observed at other positions such as Leu4 and Met11 with MDM2.and Leu1 and Met11 with MDMX,collectively contributing to a significantly enhanced binding affinity of PMI-M3 for both *** adding lysine residues to both ends of PMI and PMI-M3 to improve their cellular uptake,we obtained modified peptides termed PMI-2.(KTSFAEYWNLLSPK)and M3-2.(KLTFLEYWAQLMQK).Compared with PMI-2.,M3-2. exhibited significantly improved antitumor activities in vitro and in vivo in a P53-dependent *** super-strong peptide inhibitor of the P53-MDM2.MDMX interactions may become,in its own right,a powerful lead compound for anticancer drug development,and can aid {2. design of other classes of P53 activators as well for anticancer therapy.

关键词： MDM2 MDMX P53 Antitumor peptide Systematic mutational analysis