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Recent advances in chemical protein synthesis:method developments and biological applications

Science China Chemistry 2024年第4期67卷 1060-1096页

作者： Suwei Dong Ji-Shen Zheng Yiming Li huan Wang Gong Chen Yongxiang Chen Gemin fang Jun Guo Chunmao He Honggang hu Xuechen Li Yanmei Li Zigang Li Man Pan Shan Tang Changlin Tian Ping Wang bian Wu Chuanliu Wu Junfeng Zhao Lei Liu State Key Laboratory of Natural and Biomimetic Drugs and School of Pharmaceutical SciencesPeking UniversityBeijing 100191China Division of Life Sciences and Medicine University of Science and Technology of ChinaHefei 230027China School of Food and Biological Engineering Engineering Research Center of Bio-processMinistry of EducationHefei University of TechnologyHefei 230009China School of Chemistry and Chemical Engineering Nanjing UniversityNanjing 210023China State Key Laboratory of Elemento-Organic Chemistry Nankai UniversityTianjin 300071China Department of Chemistry Tsinghua UniversityBeijing 100084China Institute of Health Sciences Anhui UniversityHefei 230601China College of Chemistry Central China Normal UniversityWuhan 430079China School of Chemistry and Chemical Engineering South China University of TechnologyGuangzhou 510640China School of Medicine or Institute of Translational Medicine Shanghai UniversityShanghai 200444China Department of Chemistry The University of Hong KongHong Kong 999077China Shenzhen Graduate School Peking UniversityShenzhen 518055China School of Chemistry and Chemical Engineering Shanghai Jiao Tong UniversityShanghai 200240China School of Life Sciences University of Science and Technology of ChinaHefei 230026China Department of Chemical Biology Shanghai Jiao Tong UniversityShanghai 200240China Institute of Microbiology Chinese Academy of SciencesBeijing 100101China Department of Chemistry Xiamen UniversityXiamen 361005China School of Pharmaceutical Science Guangzhou Medical UniversityGuangzhou 511436China

The central dogma of modern biology underscores the pivotal roles proteins play in diverse biological processes,the study of which necessitates advanced methods to produce proteins with precision and *** protein synthesis,a powerful approach utilizing chemical reactions for the de novo construction of structurally accurate proteins,has emerged as a transformative tool for studying proteins and generating protein derivatives/mimics inaccessible by natural biological machinery,including post-translationally modified proteins,proteins comprised of unnatural amino acids,as well as mirror-image *** review summarizes recent strides in synthetic method developments for chemical protein synthesis,including innovative techniques in solid-phase peptide synthesis,the challenges presented by difficult sequences in either synthesis or folding and the exploration of novel ligation reactions using both chemical and enzymatic ***,the review also delves into newly developed protocols for site-selective protein modifications and the generation of stapled or macrocyclized peptides/miniproteins,highlighting the power of chemical methods to make structurally diverse *** applications of synthetic proteins in investigating post-translational modifications(phosphorylation,lipidation,glycosylation,ubiquitination,etc.),mirror-image biological processes and drug development are further ***,these topics provide a comprehensive overview of the current landscape of chemical protein synthesis.

关键词： chemical protein synthesis solid-phase peptide synthesis ligation reactions post-translational modifications mirror-image proteins peptide drugs

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Whole-genome Duplication Reshaped Adaptive Evolution in A Relict Plant Species,Cyclocarya paliurus

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Genomics, Proteomics & Bioinformatics 2023年第3期21卷 455-469页

作者： Yinquan Qu Xulan Shang Ziyan Zeng Yanhao Yu Guoliang bian Wenling Wang Li Liu Li Tian Shengcheng Zhang Qian Wang Dejin xie Xuequn Chen Zhenyang Liao Yibin Wang Jian Qin Wanxia Yang Caowen Sun Xiangxiang Fu Xingtan Zhang Shengzuo fang Nanjing Forestry University Co-Innovation Center for Sustainable Forestry in Southern ChinaNanjing 210037China Shenzhen Branch Guangdong Laboratory for Lingnan Modern AgricultureGenome Analysis Laboratory of the Ministry of AgricultureAgricultural Genomics Institute at ShenzhenChinese Academy of Agricultural SciencesShenzhen 518120China Center for Genomics and Biotechnology Fujian Provincial Key Laboratory of Haixia Applied Plant Systems BiologyKey Laboratory of GeneticsBreeding and Multiple Utilization of CropsMinistry of EducationFujian Agriculture and Forestry UniversityFuzhou 350002China

Cyclocarya paliurus is a relict plant species that survived the last glacial period and shows a population expansion *** leaves have been traditionally used to treat obesity and diabetes with the well-known active ingredient cyclocaric acid ***,we presented three *** genomes from two diploids with different flower morphs and one haplotype-resolved tetraploid *** genomic analysis revealed two rounds of recent whole-genome duplication events and identified 691 genes with dosage effects that likely contribute to adaptive evolution through enhanced photosynthesis and increased accumulation of *** analysis of 45 *** individuals uncovered two bottlenecks,consistent with the known events of environmental changes,and many selectively swept genes involved in critical biological functions,including plant defense and secondary metabolite *** also proposed the biosynthesis pathway of cyclocaric acid B based on multi-omics data and identified key genes,in particular gibberellinrelated genes,associated with the heterodichogamy in *** *** study sheds light on evolutionary history of *** and provides genomic resources to study the medicinal herbs.

关键词： Cyclocarya paliurus Genomics Whole-genome duplication Triterpenoid Resequencing

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A citrullinated antigenic vaccine in treatment of autoimmune arthritis

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Science Bulletin 2024年第18期69卷 2920-2929页

作者： Xu Jin Tianya Dong Qian Wang Yang xie Xiangyu fang Chaonan Wei shuyan Liu Xi Zheng Ping Wang Danxue Zhu Lulu Cao Suwei Dong Kechi fang Chao Zhong Jing Wang Fanlei hu Zhanguo Li Department of Rheumatology and Immunology Peking University People’s Hospital&Beijing Key Laboratory for Rheumatism Mechanism and Immune DiagnosisBeijing 100044China Peking-Tsinghua Center for Life Sciences Peking UniversityBeijing 100871China CAS Key Laboratory of Mental Health Institute of PsychologyChinese Academy of SciencesBeijing 100101China Department of Psychology University of Chinese Academy of SciencesBeijing 100049China Department of Chemical Biology School of Pharmaceutical SciencesPeking UniversityBeijing 100191China Institute of Systems Biomedicine Department of ImmunologyNHC Key Laboratory of Medical Immunology(Peking University)Beijing Key Laboratory of Tumor Systems BiologyPeking University Health Science CenterBeijing 100191China State Key Laboratory of Natural and Biomimetic Drugs School of Pharmaceutical SciencesPeking UniversityBeijing 100191China Department of Integration of Chinese and Western Medicine School of Basic Medical SciencesPeking UniversityBeijing 100191China

Rheumatoid arthritis(RA)is an inflammatory autoimmune disease triggered by antigenic peptides with environmental and genetic risk *** has been shown that antigen-specific targeting could be a promising therapeutical strategy for RA by restoring immune tolerance to self-antigens without compromising normal *** of antigens enhances antigenic properties and induces autoimmune ***,we showed that citrullinated antigenic(citAg)vaccine ameliorated collageninduced arthritis with decreased T-helper 1(Th1)and Th17 cells,downregulated proinflammatory cytokines including interlukin-6 and tumor necrosis factor-a,and inhibited antigen recall responses.B cell receptor sequencing further revealed that citAg vaccine could dampen the dysregulated V(D)J recombination,restoring the immune *** together,the results demonstrated that citAg vaccine might have a therapeutic effect on RA.

关键词： CitAg Citrullination Collagen typeⅡ Therapeutic vaccine Immune tolerance Rheumatoid arthritis

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响应面试验优化中式香肠天然复合抗氧化剂的配方

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食品与发酵工业 2018年第5期44卷 187-193页

作者：罗爱国胡变芳山西药科职业学院食品工程系山西太原030031 晋中学院生物科学与技术学院山西晋中030619

考察了花椒叶提取物、迷迭香提取物及抗坏血酸(Vc)对中式香肠贮藏期TBARS值的影响,采用响应面法优化了复合抗氧化剂配方,并且对复合抗氧化剂对中式香肠贮藏期TBARS值和感观品质(色泽、气味、滋味、质地及总体可接受性)的影响进行研究。... 详细信息

考察了花椒叶提取物、迷迭香提取物及抗坏血酸(Vc)对中式香肠贮藏期TBARS值的影响,采用响应面法优化了复合抗氧化剂配方,并且对复合抗氧化剂对中式香肠贮藏期TBARS值和感观品质(色泽、气味、滋味、质地及总体可接受性)的影响进行研究。结果表明,花椒叶提取物、迷迭香提取物及Vc对中式香肠的脂质过氧化有较强的抑制作用;花椒叶提取物与Vc、迷迭香提取物与Vc复配对香肠TBARS值均存在协同增效作用(p≤0.05),且前者的增效作用强于后者,而花椒叶提取物与迷迭香提取物无显著增效作用(p>0.05);花椒叶提取物、迷迭香提取物及Vc复合抗氧化剂在中式香肠中的最优配比为0.079 2、0.045 9及0.484 g/kg;按此配比处理的中式香肠在贮藏60 d的TBARS值为0.40 mgMDA/kg,较对照组降低了83.61%;感观分析结果表明,复合抗氧化剂处理香肠组总体可接受性感观值极显著高于对照组(p≤0.01);复合抗氧化剂可延长中式香肠的货架期45 d以上。

关键词：花椒叶提取物迷迭香提取物 Vc 天然复合抗氧化剂中式香肠

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含有五边形—七边形缺陷的单壁纳米碳管的输运性质研究

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物理学报 2006年第9期55卷 4822-4827页

作者：曾晖胡慧芳韦建卫谢芳彭平湖南大学应用物理系长沙410082 湖南大学材料科学与工程学院长沙410082

运用第一性原理的密度泛函理论结合非平衡格林函数研究了含有五边形—七边形拓扑缺陷的纳米碳管异质结的输运性质.结果发现拓扑缺陷对碳管的输运性质有很大影响;另外,不同类型的碳管形成的异质结的输运性质也有明显的差异.

关键词：纳米碳管输运性质异质结透射系数

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3D waveguide device for few-mode multi-core fiber optical communications

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Photonics Research 2022年第12期10卷 2677-2685页

作者： JUNCHENG fang JINGBO hu YANAN ZHONG ARU KONG JIANXIN REN SHIBIAO WEI ZHENWEI xie TING LEI BO LIU XIAOCONG YUAN Nanophotonics Research Centre Shenzhen Key Laboratory of Micro-Scale Optical Information Technology&Institute of Microscale OptoelectronicsShenzhen UniversityShenzhen 518060China Institute of Optoelectronics Nanjing University of Information Science&TechnologyNanjing 210044China

Space-division multiplexing based on few-mode multi-core fiber(FM-MCF)technology is expected to break the Shannon limit of a single-mode ***,an FM-MCF is compact,and it is difficult to couple the beam to each fiber core.3D waveguide devices have the advantages of low insertion loss and low cross talk in separating various spatial paths of multi-core *** a 3D waveguide device for an FM-MCF requires considering not only higher-order modes transmission,but also waveguide *** propose and demonstrate a 3D waveguide device fabricated by femtosecond laser direct writing for various spatial path separations in an *** 3D waveguide device couples the LP01 and LP11a modes to the FM-MCF with an insertion loss below 3 dB and cross talk between waveguides below-36 *** test the performance of the 3D waveguide device,we demonstrate four-channel multiplexing communication with two LP modes and two cores in a 1-km few-mode sevencore *** bit error rate curves show that the different degrees of bending of the waveguides result in a difference of approximately 1 dB in the power *** laser direct writing fabrication enables 3D waveguide devices to support high-order LP modes transmission and further improves FM-MCF communication.

关键词： waveguide fiber mode

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Effects of dietary supplementation with essential oils and protease on growth performance,antioxidation,inflammation and intestinal function of weaned pigs

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Animal Nutrition 2022年第2期9卷 39-48页

作者： xie Peng Qiang Zhou Cheng Wu Jian Zhao Quan Tan Ying He liang hu Zhengfeng fang Yan Lin Shengyu Xu Bin Feng Jian Li Yong Zhuo Chris Van Ginneken Xuemei Jiang De Wu lianqiang Che Key Laboratory for Animal Disease Resistance Nutrition of the Ministry of Education Animal Nutrition InstituteSichuan Agricultural UniversityChengdu 611130China Novus International Trading(Shanghai)Co. Ltd.Shanghai 200080China College of Food Science Sichuan Agricultural UniversityYa'an 625014China Laboratory of Applied Veterinary Morphology Department of Veterinary SciencesFaculty of PharmaceuticalBiomedical and Veterinary SciencesUniversity of AntwerpUniversiteitsplein 1Wilrijk 2610Belgium

This experiment evaluated the impacts of essential oils(EO)and protease(PRO),independently or in combination,on growth performance,antioxidation,inflammation and intestinal function of weaned *** hundred and sixty weaned pigs(21 d of age,BW of 6.74±0.20 kg)were randomly divided into 4 treatments with 8 replicate pens of 5 pigs per *** treatments included the following:1)control diet(CON),2)CON with 300 mg/kg essential oils(EO),3)CON with 500 mg/kg protease(PRO),4)CON with 300 mg/kg essential oil and 500 mg/kg protease(EO + PRO).On d 8,one pig from each penwas selected for *** remaining pigs were fed for an additional week and growth performance was monitored during this *** treatments had no marked effects(P>0.05)on the growth performance of ***,pigs receiving EO diet had higher(P<0.05)serumglutathione peroxidase(GSH-Px)activity,and tended to decrease(P=0.063)serum concentration of tumor necrosis factor-a(TNF-a).In addition,pigs receiving EO diet had higher(P<0.05)abundances of phylum Actinobacteria,and genera Bifidobacterium,and lower(P<0.05)phylum Bacteroidetes and genera Alloprevotella in colonic *** receiving PRO diet decreased(P<0.05)the serum concentration of malondialdehyde(MDA)and diamine oxidase activity,increased(P<0.05)the villus height and the ratio of villus height to crypt depth in duodenum,increased sucrase activity in jejunal mucosa,and also increased the abundance of phylum Actinobacteria in colonic ***,the synergistic effects of EO and PROwas observed(P<0.05)for pigs with decreasing serum TNF-a concentration and increasing serum GSH-Px ***,the results indicated that dietary supplementation of EO and PRO had no significant effects on growth performance of weaned *** diet appeared to improve antioxidant activity and intestinal microbiota,while PRO diet improved intestinal morphology and digestive enzyme activity,and there was a synergistic effect of EO and PRO on

关键词： Essential oil Immune response Intestinal health Oxidative stress Protease Weaned pig

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A bZIP transcription factor(CiFD) regulates drought-and low-temperature-induced flowering by alternative splicing in citrus

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Journal of Integrative Plant Biology 2023年第3期65卷 674-691页

作者： Li-Xia Ye Yan-Mei Wu Jin-Xia Zhang Jin-Xin Zhang huan Zhou Ren-fang Zeng Wei Xuan Zheng Mei-Qi Qiu Jing-Jing Zhou Zong-Zhou xie Chun-Gen hu Jin-Zhi Zhang Key Laboratory of Horticultural Plant Biology(Ministry of Education) College of Horticulture and Forestry ScienceHuazhong Agricultural UniversityWuhan 430070China Institute of Fruit and Tea Hubei Academy of Agricultural SciencesWuhan 430064China

Drought and low temperature are two key environmental factors that induce adult citrus flowering. However, the underlying regulation mechanism is poorly understood. The bZIP transcription factor FD is a key component of the florigen activation complex(FAC) which is composed of FLOWERING LOCUS T(FT), FD, and 14-3-3 proteins. In this study, isolation and characterization of CiFD in citrus found that there was alternative splicing(AS) of CiFD, forming two different proteins(CiFDα and CiFDβ). Further investigation found that their expression patterns were similar in different tissues of citrus, but the subcellular localization and transcriptional activity were different. Overexpression of the CiFD DNA sequence(CiFD-DNA), CiFDα, or CiFDβ in tobacco and citrus showed early flowering, and CiFD-DNA transgenic plants were the earliest, followed by CiFDβ and CiFDα. Interestingly, CiFDα and CiFDβ were induced by low temperature and drought, respectively. Further analysis showed that CiFDαcan form a FAC complex with CiFT, Ci14-3-3, and then bind to the citrus APETALA1(CiAP1) promoter and promote its expression. However,CiFDβ can directly bind to the CiAP1 promoter independently of CiFT and Ci14-3-3. These results showed that CiFDβ can form a more direct and simplified pathway that is independent of the FAC complex to regulate drought-induced flowering through AS. In addition, a b HLH transcription factor(CibHLH96) binds to CiFD promoter and promotes the expression of CiFD under drought condition. Transgenic analysis found that CibHLH96 can promote flowering in transgenic tobacco. These results suggest that CiFD is involved in drought-and low-temperature-induced citrus flowering through different regulatory patterns.

关键词： alternative splicing citrus CiFD drought flowering low temperature

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基于BP神经网络的词义消歧模型

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计算机工程与应用 2006年第12期42卷 187-189,203页

作者：谢芳胡泉华中师范大学计算机科学系武汉430079

词义消歧在自然语言处理中一直是一个难点问题,同时,也是很多领域都需要解决的一个重要环节。文章首先介绍了目前一些常用词义消歧方法的特点和这些方法的研究进展,并在此基础上探讨了一种基于BP神经网络和统计方法相结合的有导词义消... 详细信息

词义消歧在自然语言处理中一直是一个难点问题,同时,也是很多领域都需要解决的一个重要环节。文章首先介绍了目前一些常用词义消歧方法的特点和这些方法的研究进展,并在此基础上探讨了一种基于BP神经网络和统计方法相结合的有导词义消歧模型,最后详细讲解了BP神经网络原理,并对使用这种混合人工智能的消歧模型的可能性和优越性进行了讨论。

关键词：词义消歧基于统计 BP神经网络语料库

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零质量射流作用下红细胞在微管道中变形的数值模拟

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物理学报 2020年第23期69卷 181-189页

作者：艾晋芳解军胡国辉上海大学力学与工程科学学院上海市应用数学和力学研究所上海市力学在能源工程中的应用重点实验室上海200072

因为在生物安全性和导入效率等方面的优势,基于力学方法实现基因导入日益得到学术界的重视.本文提出了一种基于零质量射流,对微管道中运动的细胞施加流体作用力,引起其发生变形,进而促使细胞膜上力敏通道开启的方法,并通过数值模拟进行... 详细信息

因为在生物安全性和导入效率等方面的优势,基于力学方法实现基因导入日益得到学术界的重视.本文提出了一种基于零质量射流,对微管道中运动的细胞施加流体作用力,引起其发生变形,进而促使细胞膜上力敏通道开启的方法,并通过数值模拟进行了理论验证.本文采用浸没有限元法,对红细胞在微管道内运动过程中受到零质量射流作用的变形情况进行数值模拟,探讨了如何高效地实现小分子物质导入细胞.数值模拟的重要参数有微管道内压力梯度Δp,零质量射流的振幅Am和频率f.经过对流场特征和红细胞受力情况的分析,发现当细胞某处表面张力T0大于临界表面张力τc时,细胞表面力敏通道打开,并得到每一时刻细胞力敏通道打开的百分比Popen.本文定义了通道开启积分I,以衡量在不同的流动参数情况下,细胞膜力敏通道的开启程度,进而探讨了压力梯度和射流振动频率、振幅对I值的影响,以寻找优化的工艺参数.该方法具有微制造工艺简单易行,在保证高通量导入的同时,便于对所施加的流体作用力进行精确控制的特点,这使得蛋白质、基因等物质实现跨膜输运,进入细胞并发生重编程成为可能.

关键词：浸没有限元法零质量射流力敏通道跨膜输运

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