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SARS-CoV-2 Spike Protein Post-Translational Modification Landscape and Its Impact on Protein Structure and Function via Computational Prediction

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Research 2023年第3期2023卷 757-767页

作者： Buwen Liang Yiying Zhu Wenhao shi Can Ni Bowen Tan shaojun Tang The Hong Kong University of Science and Technology(Guangzhou) GuangzhouChina Analysis Center Chemistry DepartmentTsinghua UniversityBeijingChina The Hong Kong University of Science and Technology Hong Kong SARChina

To elucidate the role of post-translational modifications(PTMs)in severe acute respiratory syndrome coronavirus 2(SARS-CoV-2)spike protein’s structure and virulence,we generated a high-resolution map of 87 PTMs using liquid chromatography with tandem mass spectrometry data on the extracted spike protein from SARS-CoV-2 virions and then reconstituted its structure heterogeneity caused by ***,Alphafold2,a high-accuracy artificial intelligence tool to perform protein structure prediction,relies solely on primary amino acid sequence,whereas the impact of PTM,which often modulates critical protein structure and function,is much *** overcome this challenge,we proposed the mutagenesis approach—an in silico,site-directed amino acid substitution to mimic the influence of PTMs on protein structure due to altered physicochemical properties in the post-translationally modified amino acids—and then reconstituted the spike protein’s structure from the substituted sequences by *** the first time,the proposed method revealed predicted protein structures resulting from PTMs,a problem that Alphafold2 has yet to *** an example,we performed computational analyses of the interaction of the post-translationally modified spike protein with its host factors such as angiotensin-converting enzyme 2 to illuminate binding ***,this study suggested the structural analysis of post-translationally modified protein via mutagenesis and deep *** summarize,the reconstructed spike protein structures showed that specific PTMs can be used to modulate host factor binding,guide antibody design,and pave the way for new therapeutic *** code and Supplementary Materials are freely available at https://***/LTZHKUSTGZ/SARS-CoV-2-spike-protein-PTM.

关键词： translational substituted overcome

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The chimeric genes in the hybrid lineage of Carassius auratus cuvieri(♀)×Carassius auratus red var.(♂)

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Science China(Life Sciences) 2018年第9期61卷 1079-1089页

作者： Qingfeng Liu Yanhua Qi Qiuli Liang Xiujuan Xu Fangzhou Hu Jing Wang Jun Xiao shi Wang Wuhui Li Min Tao Qinbo Qin Rurong Zhao Zhanzhou Yao shaojun Liu State Key Laboratory of Developmental Biology of Freshwater Fish Hunan Normal University College of Life Sciences Hunan Normal University

Hybridization can combine the genomes of different strains or species, which leads to changes of genotype and phenotype in the hybrids. In this study, we aimed to investigate the genetic variations of hybrids(WR-F1 and WR-F2) derived from the intraspecific hybridization of white crucian carp(Carassius auratus cuvieri, WCC, ♀) and red crucian carp(Carassius auratus red var., RCC, ♂). Here, we compared the orthologous genes in the liver transcriptomes of hybrids with those of WCC and RCC, and classified the orthologous genes into eight gene patterns within three categories(chimera, mutant, and biparental origin genes).The results revealed 19.04%, 4.17% chimeric genes and 6.90%, 5.05% mutations of orthologous genes in WR-F1 and WR-F2 respectively. Seventeen of twenty-three characterized genes(77%) were confirmed to be the chimeras at the genomic DNA *** GO classification discovered that some chimeric and mutant genes were related to metabolic process, immune system and developmental process in WR-F1. Our results provide the new evidence that hybridization can combine the parental genomes,leading to changes in the genotype of the resultant hybrids. This is the first report on the formation of chimeric genes from fish intraspecific hybridization, which is potentially interesting from the context of both evolution and the genetic breeding of fish.

关键词： intraspecific hybridization chimeric genes transcriptomes sequence validation genetic variation

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An improved hybrid bream derived from a hybrid lineage of Megalobrama amblycephala(♀)×Culter alburnus(♂)

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Science China(Life Sciences) 2022年第6期65卷 1213-1221页

作者： Dingbin Gong Min Tao Lihui Xu Fangzhou Hu Zehong Wei shi Wang Yude Wang Qingfeng Liu Chang Wu Kaikun Luo Chenchen Tang Rong Zhou Chun Zhang Yuequn Wang shaojun Liu State Key Laboratory of Developmental Biology of Freshwater Fish Hunan Normal UniversityChangsha 410081China College of Life Sciences Hunan Normal UniversityChangsha 410081China

Distant hybridization is an important technique in fish genetic *** this study,based on the establishment of an allodiploid fish lineage(BT,2n=48,F_(1)–F_(6))derived from distant hybridization between female Megalobrama amblycephala(BSB,2n=48)and male Culter alburnus(TC,2n=48),and the backcross progeny(BTB,2n=48)derived by backcrossing female F_(1) of BT to male BSB,an improved hybrid bream(BTBB,2n=48)was obtained by backcrossing BTB(♀)to BSB(♂).Moreover,the morphological and genetic characteristics of BTBB individuals were investigated;BTBB was similar to BSB in appearance but had a higher body height than *** study results regarding chromosome numbers and DNA content indicated that BTBB is a diploid hybrid *** 5S rDNA and Hox gene of BTBB were inherited from the original *** development in BTBB was *** the other hand,BTBB had a faster growth rate,higher muscle protein level,and lower muscle carbohydrate level than ***,bisexual fertile BTBB is promoted and can be applied as a high-quality fish,and it can also be used as a new fish germplasm resource to develop high-quality fish ***,this study is of great significance for fish genetic breeding.

关键词： distant hybridization Megalobrama amblycephala backcrossing improved germplasm resources

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Establishment and application of distant hybridization technology in fish

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Science China(Life Sciences) 2019年第1期62卷 22-45页

作者： shi Wang Chenchen Tang Min Tao Qinbo Qin Chun Zhang Kaikun Luo Rurong Zhao Jing Wang Li Ren Jun Xiao Fangzhou Hu Rong Zhou Wei Duan shaojun Liu State Laboratory of Developmental Biology of Freshwater Fish Hunan Normal University College of Life Sciences Hunan Normal University

Hybridization is widely used. However, for a long time, systematic theories and technologies related to hybridization in fish have been lacking. In this study, through long-term systematic research, we investigated and obtained the main rules regarding inheritance and reproduction related to fish distant hybridization. Furthermore, we established one-step and multistep breeding technologies that were suitable for interspecific hybridization and intraspecific hybridization. Simultaneously, we used these two breeding technologies to produce a batch of diploid fish lineages and tetraploid fish lineages and improved fishes. In addition, we widely discuss the methods, technologies and results of hybridization breeding, referring to the domestic and foreign literature on fish hybridization. We hope that this paper will be beneficial for the research and application of fish hybrid breeding.

关键词： fish distant hybridization intraspecific hybridization breeding technology lineage

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Evidence for the paternal mitochondrial DNA in the crucian carp-like fish lineage with hybrid origin

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Science China(Life Sciences) 2020年第1期63卷 102-115页

作者： shi Wang Ni Jiao Lu Zhao Meiwen Zhang Pei Zhou Xuexue Huang Fangzhou Hu Conghui Yang Yuqin Shu Wuhui Li Chun Zhang Min Tao Bo Chen Ming Ma shaojun Liu State Key Laboratory of Developmental Biology of Freshwater Fish Hunan Normal UniversityChangsha 410081China College of Life Sciences Hunan Normal UniversityChangsha 410081China College of Chemistry and Chemical Engineering Hunan Normal UniversityChangsha 410081China Key Laboratory of Tropical and Subtropical Fisheries Resource Application and Cultivation Ministry of AgriculturePearl River Fisheries Research InstituteChinese Academy of Fishery SciencesGuangzhou 510380China

In terms of taxonomic status,common carp(Cyprinus carpio,Cyprininae)and crucian carp(Carassius auratus,Cyprininae)are different species;however,in this study,a newborn homodiploid crucian carp-like fish(2n=100)(2nNCRC)lineage(F1–F3)was established from the interspecific hybridization of female common carp(2n=100)×male blunt snout bream(Megalobrama amblycephala,Cultrinae,2n=48).The phenotypes and genotypes of 2 n NCRC differed from those of its parents but were closely related to those of the existing diploid crucian *** further sequenced the whole mitochondrial(mt)genomes of the 2n NCRC lineage from F1 to *** paternal mt DNA fragments were stably embedded in the mt-genomes of F1–F3 generations of 2n NCRC to form chimeric DNA *** with this chimeric process,numerous base sites of F1–F3 generations of 2 n NCRC underwent *** of these mutation sites were consistent with the existing diploid crucian ***,the mt DNA organization and nucleotide composition of 2n NCRC were more similar to those of the existing diploid crucian carp than those of the *** inheritable chimeric DNA fragments and mutant loci in the mt-genomes of different generations of 2nNCRC provided important evidence of the mt DNA change process in the newborn lineage derived from hybridization of different *** findings demonstrated for the first time that the paternal mt DNA were transmitted into the mt-genomes of homodiploid lineage,which provided new insights into the existence of paternal mt DNA in the mt DNA inheritance.

关键词： hybridization homodiploid common carp blunt snout bream crucian carp mitochondrial genome genetic evolution

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中点箝位型光伏并网逆变器调制策略及效率对比

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南京航空航天大学学报 2014年第1期46卷 65-71页

作者：石祥花谢少军南京航空航天大学自动化学院南京210016

传统三电平中点箝位(Three-level neutral point clamped,3L-NPC)半桥逆变器在高压大功率条件下,由于开关器件损耗不均衡而使其容量受限,因此衍生了多种NPC型三电平半桥拓扑。为了优化选取NPC型拓扑及调制策略,对4种3L-NPC型拓扑(二极管... 详细信息

传统三电平中点箝位(Three-level neutral point clamped,3L-NPC)半桥逆变器在高压大功率条件下,由于开关器件损耗不均衡而使其容量受限,因此衍生了多种NPC型三电平半桥拓扑。为了优化选取NPC型拓扑及调制策略,对4种3L-NPC型拓扑(二极管NPC、有源式NPC、层叠式NPC及有源层叠式NPC)的调制策略及开关器件损耗分布进行了对比分析,并研制了一台5kW的NPC型统一实验平台,进行了效率测试。理论分析与实验结果表明:(1)根据零电平续流路径的配置不同,NPC型拓扑主要有4种调制策略;(2)选取合理的NPC型拓扑及调制策略,不仅可以均衡器件损耗,而且系统效率基本不变,为逆变器的扩容奠定了基础。

关键词：逆变器中点箝位三电平中点箝位调制策略损耗分布

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Advances of nanoparticles as drug delivery systems for disease diagnosis and treatment

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Chinese Chemical Letters 2023年第2期34卷 65-88页

作者： Rui Liu Cong Luo Zhiqing Pang Jinming Zhang Shaobo Ruan Meiying Wu Lei Wang Tao Sun Nan Li Liang Han Jinjin shi Yuanyu Huang Weisheng Guo shaojun Peng Wenhu Zhou Huile Gao Key Laboratory of Drug-Targeting and Drug Delivery System of the Education Ministry and Sichuan Province Sichuan Engineering Laboratory for Plant-Sourced Drug and Sichuan Research Center for Drug Precision Industrial TechnologyWest China School of PharmacySichuan UniversityChengdu 610041China Department of Pharmaceutics Wuya College of InnovationShenyang Pharmaceutical UniversityShenyang 110016China Department of Pharmaceutics School of PharmacyFudan UniversityKey Laboratory of Smart Drug DeliveryMinistry of EducationShanghai 200433China State Key Laboratory of Southwestern Chinese Medicine Resources Pharmacy SchoolChengdu University of Traditional Chinese MedicineChengdu 611130China Advanced Research Institute of Multidisciplinary Science Beijing Institute of TechnologyBeijing 100081China School of Pharmaceutical Sciences(Shenzhen) Sun Yat-sen UniversityShenzhen 518107China School of Pharmaceutical Sciences Zhengzhou UniversityKey Laboratory of Targeting Therapy and Diagnosis for Critical DiseasesZhengzhou 450001China Tianjin Key Laboratory of Drug Delivery&High-Efficiency School of Pharmaceutical Science and TechnologyTianjin UniversityTianjin 300072China Jiangsu Key Laboratory of Neuropsychiatric Diseases and College of Pharmaceutical Sciences Soochow UniversitySuzhou 215123China Advanced Research Institute of Multidisciplinary Science School of Life ScienceKey Laboratory of Molecular Medicine and BiotherapyKey Laboratory of Medical Molecule Science and Pharmaceutics EngineeringBeijing Institute of TechnologyBeijing 100081China Radiology Center Key Laboratory of Molecular Target&Clinical PharmacologySchool of Pharmaceutical Sciences&The Second Affiliated HospitalGuangzhou Medical UniversityGuangzhou 510260China Zhuhai Institute of Translational Medicine Zhuhai People's Hospital(Zhuhai hospital affiliated with Jinan University)Zhuhai 519000China Xiangya School of Pharmaceutical Sciences Central South UniversityChangsha 410013China

Decades have passed since the first nanoparticles-base medicine was approved for human cancer treatment, and the research and development of nanoparticles for drug delivery are always ***, the significant advances complicate nanoparticles’ branches, including liposomes, solid lipid nanoparticles, inorganic nanoparticles, micelles, nanovaccines and nano-antibodies, etc. These nanoparticles show numerous capabilities in treatment and diagnosis of stubborn diseases like cancer and neurodegenerative diseases, emerging as novel drug carriers or therapeutic agents in future. In this review, the complicated branches of nanoparticles are classified and summarized, with their property and functions concluded. Besides, there are also some delivery strategies that make nanoparticles smarter and more efficient in drug delivery, and frontiers in these strategies are also summarized in this review. Except these excellent works in newly-produced drug delivery nanoparticles, some points of view and future expectations are made in the end.

关键词： Nanoparticles Drug delivery Nanomaterials Delivery strategies Specific delivery Disease diagnosis Disease treatment

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Arabidopsis CAP1 mediates ammonium-regulated root hair growth by influencing vesicle trafficking and the cytoskeletal arrangement in root hair cells

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Journal of Genetics and Genomics 2022年第10期49卷 986-989页

作者： Juanjuan Yu Xiaonan Ma Lianlian Wang Nannan Dong Kai Wang Qingye You Yifei Xu Chong Wang Zhiping Dong Zhaobin shi shaojun Dai Ling Bai Chun-Peng Song State Key Laboratory of Crop Stress Adaptation and Improvement School of Life SciencesHenan UniversityKaifengHenan 475001China Henan International Joint Laboratory of Agricultural Microbial Ecology and Technology College of Life SciencesHenan Normal UniversityXinxiangHenan 453007China Development Center of Plant Germplasm Resources College of Life SciencesShanghai Normal UniversityShanghai 200234China

Plant root hairs are essential for mineral and water absorption,which possess sophisticated sensory mechanisms to allow them to respond to different environmental ***(NH^(+))is a major form of nitrogen in the ***^(+)c... 详细信息

关键词： arrangement hair Arabidopsis

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国医大师刘柏龄运用补肾祛瘀法治疗膝骨性关节炎经验

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吉林中医药 2024年第2期44卷 174-177页

作者：张宪帅石明鹏刘世林周国徽马悦赵长伟李绍军孙凤玲李振华长春中医药大学长春130117 长春中医药大学附属医院骨科中心长春130021

介绍国医大师刘柏龄教授运用补肾祛瘀法治疗膝骨性关节炎的经验。刘柏龄主张“治肾亦即治骨”,认为膝骨性关节炎以肝肾亏虚为根本原因,瘀血痹阻为标实,病位在肝肾,治疗上应抓住主要矛盾,以补肾壮骨为主,祛瘀通络为辅,补肾祛瘀法贯穿膝... 详细信息

介绍国医大师刘柏龄教授运用补肾祛瘀法治疗膝骨性关节炎的经验。刘柏龄主张“治肾亦即治骨”,认为膝骨性关节炎以肝肾亏虚为根本原因,瘀血痹阻为标实,病位在肝肾,治疗上应抓住主要矛盾,以补肾壮骨为主,祛瘀通络为辅,补肾祛瘀法贯穿膝骨性关节炎整个疗程的始终。临证常选用膝痛1号方化裁治疗膝骨性关节炎,善用海螵蛸、藤类药、虫类药,内外兼治,临床疗效显著。

关键词：国医大师膝骨性关节炎补肾祛瘀法刘柏龄

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无线传感器网络时空信息集成框架研究

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西北工业大学学报 2005年第3期23卷 290-294页

作者：杨少军史浩山黄睿西北工业大学电子信息学院陕西西安710072

针对协作信号信息处理是构建无线传感器网络的关键技术之一。网络中有效信息分布时空变化的特点,提出了一种基于移动代理的时空信息集成框架。通过定义传感节点的目标检测信令和观测节点的时间延迟窗“节拍”,得到信息集成的时空坐标系... 详细信息

针对协作信号信息处理是构建无线传感器网络的关键技术之一。网络中有效信息分布时空变化的特点,提出了一种基于移动代理的时空信息集成框架。通过定义传感节点的目标检测信令和观测节点的时间延迟窗“节拍”,得到信息集成的时空坐标系;移动代理携带集成算法执行基于系统效能函数优化的访问路径,完成时域和空域的信息集成。节拍是空域信息集成的时间点,节拍序列构成时域信息集成的时间轴。仿真实验结果证明了框架的有效性。

关键词：无线传感器网络协作信号信息处理移动代理时空信息集成

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