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| 1 | A complete sequence and comparative analysis of a SARS-associated virus(Isolate BJ01)显示文摘The genome sequence of the Severe Acute Respiratory Syndrome (SARS)-associated virus provides essential information for the identification of pathogen(s), exploration of etiology and evolution, interpretation of transmission and pathogenesis, development of diagnostics, prevention by future vaccination, and treatment by developing new drugs. We report the complete genome sequence and comparative analysis of an isolate (BJ01) of the coronavirus that has been recognized as a pathogen for SARS. The genome is 29725 nt in size and has 11 ORFs (Open Reading Frames). It is composed of a stable region encoding an RNA-dependent RNA polymerase (composed of 2 ORFs) and a variable region representing 4 CDSs (coding sequences) for viral structural genes (the S, E, M, N proteins) and 5 PUPs (putative uncharacterized proteins). Its gene order is identical to that of other known coronaviruses. The sequence alignment with all known RNA viruses places this virus as a member in the family of Coronaviridae. Thirty putative substitutions have been identified by comparative analysis of the 5 SARS- associated virus genome sequences in GenBank. Fifteen of them lead to possible amino acid changes (non-synonymous mutations) in the proteins. Three amino acid changes, with predicted alteration of physical and chemical features, have been detected in the S protein that is postulated to beinvolved in the immunoreactions between the virus and its host. Two amino acid changes have been detected in the Mprotein, which could be related to viral envelope formation. Phylogenetic analysis suggests the possibility of non-human origin of the SARS-associated viruses but provides noevidence that they are man-made. Further efforts should focus on identifying the etiology of the SARS-associated virus and ruling out conclusively the existence of otherpossible SARS-related pathogen(s). | QIN E'de ZHU Qingyu YU Man FAN Baochang CHANG Guohui SI Bingyin YANG Bao PENG Wenming JIANG Tao LIU Bohua DENG Yongqiang LIU Hong ZHANG Yu WANG Cui LI Yuquan GAN Yonghua LI Xiaoyu L Fushuang TAN Gang CAO Wuchun, YANG Ruifu Institute of Microbiology and Epidemiology, Chinese Academy of Military Medical Sciences, Beijing 100071, China WANG Jian, LI Wei, XU Zuyuan, LI Yan, WU Qingfa, LIN Wei, CHEN Weijun, TANG Lin, DENG Yajun, HAN Yujun, LI Changfeng, LEI Meng, LI Guoqing, LI Wenjie, L Hong, SHI Jianping, TONG Zongzhong, ZHANG Feng, LI Songgang, LIU Bin, LIU Siqi, DONG Wei, WANG Jun, Gane K-S Wong, YU Jun & YANG Huanming* Beijing Genomics Institute, Chinese Academy of Sciences, Beijing 101300 National Center for Genome Information, Beijing 101300, China | 2003 | Chinese Science Bulletin2003，48，10： | 121 |
| 2 | Predicting Cadmium Safety Thresholds in Soils Based on Cadmium Uptake by Chinese Cabbage显示文摘Cadmium(Cd), a common toxic heavy metal in soil, has relatively high bioavailability, which seriously threatens agricultural products. In this study, 8 different soils with contrasting soil properties were collected from different regions in China to investigate the Cd transfer coefficient from soil to Chinese cabbage(Brassica chinensis L.) and the threshold levels of Cd in soils for production of Chinese cabbage according to the food safety standard for Cd. Exogenous Cd(0–4 mg kg^(-1)) was added to the soils and equilibrated for 2 weeks before Chinese cabbage was grown under greenhouse conditions. The influence of soil properties on the relationship between soil and cabbage Cd concentrations was investigated. The results showed that Cd concentration in the edible part of Chinese cabbage increased linearly with soil Cd concentration in 5 soils, but showed a curvilinear pattern with a plateau at the highest dose of exogenous Cd in the other 3 soils. The Cd transfer coefficient from soil to plant varied significantly among the different soils and decreased with increasing soil p H from 4.7 to 7.5. However, further increase in soil pH to > 8.0 resulted in a significant decrease in the Cd transfer coefficient. According to the measured Cd transfer coefficient and by reference to the National Food Safety Standards of China, the safety threshold of Cd concentration in soil was predicted to be between 0.12 and 1.7 mg kg^(-1) for the tested soils. The predicted threshold values were higher than the current soil quality standard for Cd in 5 soils, but lower than the standard in the other 3 soils. Regression analysis showed a significant positive relationship between the predicted soil Cd safety threshold value and soil p H in combination with soil organic matter or clay content. | LU Junhe YANG Xinping MENG Xuchao WANG Guoqing LIN Yusuo WANG Yujun ZHAO Fangjie | 2017 | Pedosphere2017，27，3： | 13 |
| 3 | A draft sequence of the rice (Oryza sativa ssp. indica) genome显示文摘The sequence of the rice genome holds fundamental information for its biology, including physiology, genetics, development, and evolution, as well as information on many beneficial phenotypes of economic significance. Using a 'whole genome shotgun' approach, we have pro-duced a draft rice genome sequence of Oryza sativa ssp. in-dica, the major crop rice subspecies in China and many other regions of Asia. The draft genome sequence is constructed from over 4.3 million successful sequencing traces with an accumulative total length of 2214.9 Mb. The initial assembly of the non-redundant sequences reached 409.76 Mb in length, based on 3.30 million successful sequencing traces with a total length of 1797.4 Mb from an indica variant cultivar 93-11, giving an estimated coverage of 95.29% of the rice genome with an average base accuracy of higher than 99%. The coverage of the draft sequence, the randomness of the sequence distribution, and the consistency of BIG-ASSEM-BLER, a custom-designed software package | YU Jun, HU Songnian, WANG Jun,LI Songgang WONG Ka-Shu Gane, LIU Bin,DENG Yajun, DAI Li, ZHOU Yan,ZHANG Xiuqing, CAO Mengliang, LIU Jing,SUN Jiandong , TANG Jiabin, CHEN Yanjiong,HUANG Xiaobing, LIN Wei, YE Chen, TONG Wei,CONG Lijuan, GENG Jianing, HAN Yujun, LI Lin,LI Wei, HU Guangqiang, HUANG Xiangang,LI Wenjie, LI Jian, LIU Zhanwei, LI Long,LIU Jianping, Ql Qiuhui, LIU Jinsong, LI Li,WANG Xuegang, LU Hong, WU Tingling,ZHU Miao, Nl Peixiang, HAN Hua, DONG Wei,REN Xiaoyu, FENG Xiaoli, GUI Peng,LI Xianran, WANG Hao, XU Xin, ZHAI Wenxue,XU Zhao, ZHANG Jinsong, HE Sijie,ZHANG Jianguo, XU Jichen, ZHANG Kunlin,ZHENG Xianwu, DONG Jianhai, ZENG Wanyong,TAO Lin, CHEN Xuewei, HE Jun, LIU Daofeng,TIAN Wei, TIAN Chaoguang, XIA Hongai,LI Gang, GAO Hui, LI Ping, CHEN Wei ,WANG Xudong, ZHANG Yong, HU Jianfei,WANG Jing, LIU Song, YANG Jian,ZHANG Guangyu, XIONG Yuqing, LI Zhijie,MAO Long, ZHOU Chengshu, ZHU Zhen,CHEN Runsheng, HAO Bailin,ZHENG Weimou, CHEN Shouyi, QUO Wei,LI Guojie, LIU Siqi, HUANG Guyang,TAO Ming, WANG Jian, ZHU Lihuang,YUAN Longping& YANG HuanmingBeijing Genomics Institute/Center of Genomics & Bioinformatics, Chinese Academy of Sciences, Beijing 101300, China Hangzhou Genomics Institute/Institute of Bioinformatics of Zhejiang University/Key Laboratory of Bioinformatics of Zhejiang Province, Hangzhou 310007, China Institute of Genetics, Chinese Academy of Sciences, Beijing 100101, China National Hybrid Rice R & D Center, Changsha 410125, China Laboratory of Bioinformatics, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China College of Life Sciences, Peking University, Beijing 100871, China Institute of Theoretical Physics, Chinese Academy of Sciences, Beijing 1Q0080, China Digital China Ltd., Beijing 100080, China Institute of Computing Technology, Chinese Academy of Sciences, Beijing 100080, China Medical College, Xi’an Jiaotong University, Xi’an 710061, ChinaThese authors contributed equally to this work.Corresponding author.Corresponden | 2001 | Chinese Science Bulletin2001，46，23： | 6 |
| 4 | IL-17A-dependent gut microbiota is essential for regulating diet-induced disorders in mice显示文摘The gut microbiota plays a key role in obesity and related metabolic disorders, and multiple factors including diet, host genotype, and age regulate it. Many studies have examined the contribution of extrinsic factors to the regulation of the gut microbiota, but the importance of the host genetic constitution cannot be ignored. Interleukin 17A(IL-17A), a pro-inflammatory cytokine, is important in the defense against infection and diseases. Here, we investigated the association among IL-17, a high-fat diet(HFD), and the gut microbiota. Mice deficient in IL-17A were resistant to diet-induced obesity and related diseases. Compared with the Ⅱ-17^(-/-)mice, wild-type(WT) mice challenged with HFD showed obvious weight fluctuations, such as those seen in type 2 diabetes, and hematological changes similar to those associated with metabolic syndrome. However, housing WT mice and Ⅱ-17a^(-/-)mice together significantly alleviated these symptoms in the WT mice. A metagenomic analysis of the mouse feces indicated that the microbial community compositions of these two groups differed before HFD feeding. The HFD mediated shifts in the gut microbial compositions, which were associated with the mouse phenotypes.We also identified potentially beneficial and harmful species present during this period, and drew networks of the most abundant species. A functional analysis indicated pathway changes in the WT and Ⅱ-17a^(-/-)mice when fed the HFD. Collectively, these data underscore the importance of the host factor IL-17 A in shaping and regulating the gut microbiota, which conversely, influences the host health. | Yujing Bi Chunxiao Li Lin Liu Jiyuan Zhou Zhengchao Li Huimin Deng Chunyan Wu Yanping Han Yajun Song Yafang Tan Xiaoyi Wang Zongmin Du Yujun Cui Yanfeng Yan Fachao Zhi Guangwei Liu Nan Qin Heping Zhang Ruifu Yang | 2017 | Science Bulletin2017，62，15： | 5 |
| 5 | Deletion of SMARCA4 impairs alveolar epithelial type II cells proliferation and aggravates pulmonary fibrosis in mice显示文摘Alveolar epithelial cells(AECs)injury and failed reconstitution of the AECs barrier are both integral to alveolar flooding and subsequent pulmonary fibrosis(PF).Nevertheless,the exact mechanisms regulating the regeneration of AECs post-injury still remain unclear.SMARCA4 is a part of the large ATP-dependent chromatin remodelling complex SWI/SNF,which is essential for kidney and heart fibrosis.We investigates SMARCA4 function in lung fibrosis by establishing PF mice model with bleomycin firstly and found that the expression of SMARCA4 was mainly enhanced in alveolar type II(ATII)cells.Moreover,we established an alveolar epithelium-specific SMARCA4-deleted SP-C-rtTA/(tetO)7-Cre/SMARCA4f/f mice(SOSM4D/D)model,as well as a new SMARCA4-deleted alveolar type II(ATII)-like mle-12 cell line.We found that the bleomycin-induced PF was more aggressive in SOSM4D/D mice.Also,the proliferation of ATII cells was decreased with the loss of SMARCA4 in vivo and in vitro.In addition,we observed increased proliferation of ATII cells accompanied by abnormally high expression of SMARCA4 in human PF lung sections.These data uncovered the indispensable role of SMARCA4 in the proliferation of ATII cells,which might affect the progression of PF. | Danyi Peng Daozhu Si Rong Zhang Jiang Liu Hao Gou Yunqiu Xia Daiyin Tian Jihong Dai Ke Yang Enmei Liu Yujun Shi Q.Richard Lu Lin Zou Zhou Fu | 2017 | Genes & Diseases2017，4，4： | 3 |
| 6 | ERMAP is a B7 family-related molecule that negatively regulates T cell and macrophage responses显示文摘T cell activation and tolerance are tightly regulated by costimulatory and coinhibitory molecules.B7 family members play a crucial role in regulating immune responses.In this study,we identified erythroid membrane-associated protein(ERMAP)as a novel T cell inhibitory molecule.ERMAP shares significant sequence and structural homology with existing B7 family members in its extracellular domain.The ERMAP protein is expressed on the cell surface of resting and activated antigen-presenting cells(APCs)and in some tumor tissues.The putative ERMAP receptor is expressed on activated CD4 and CD8 T cells and macrophages.Both mouse and human ERMAP-IgG2a Fc(ERMAP-Ig)fusion proteins inhibit T cell functions in vitro.Administration of ERMAP-Ig protein ameliorates autoimmune diseases,including experimental autoimmune encephalomyelitis and type 1 diabetes,in mice.Anti-ERMAP antibody enhances macrophage phagocytosis of cancer cells in vitro.Furthermore,administration of an anti-ERMAP antibody inhibits tumor growth in mice likely by blocking the inhibitory effects of ERMAP on T cells and macrophages.Our results suggest that therapeutic interaction with the ERMAP inhibitory pathway may represent a novel strategy for treating patients with autoimmune disease or cancer. | Min Su Yujun Lin Cheng Cui Xiaohong Tian Laijun Lai | 2021 | Cellular & Molecular Immunology2021，18，8： | 2 |
| 7 | Tunable Dynamic Black Phosphorus/Insulator/Si Heterojunction Direct-Current Generator Based on the Hot Electron Transport显示文摘Static heterojunction-based electronic devices have been widely applied because carrier dynamic processes between semiconductors can be designed through band gap engineering.Herein,we demonstrate a tunable direct-current generator based on the dynamic heterojunction,whose mechanism is based on breaking the symmetry of drift and diffusion currents and rebounding hot carrier transport in dynamic heterojunctions.Furthermore,the output voltage can be delicately adjusted and enhanced with the interface energy level engineering of inserting dielectric layers.Under the ultrahigh interface electric field,hot electrons will still transfer across the interface through the tunneling and hopping effect.In particular,the intrinsic anisotropy of black phosphorus arising from the lattice structure produces extraordinary electronic,transport,and mechanical properties exploited in our dynamic heterojunction generator.Herein,the voltage of 6.1 V,current density of 124.0 A/m^(2),power density of 201.0 W/m^(2),and energy-conversion efficiency of 31.4%have been achieved based on the dynamic black phosphorus/AlN/Si heterojunction,which can be used to directly and synchronously light up light-emitting diodes.This direct-current generator has the potential to convert ubiquitous mechanical energy into electric energy and is a promising candidate for novel portable and miniaturized power sources in the in situ energy acquisition field. | Yanghua Lu Sirui Feng Runjiang Shen Yujun Xu Zhenzhen Hao Yanfei Yan Haonan Zheng Xutao Yu Qiuyue Gao Panpan Zhang Shisheng Lin | 2019 | Research2019，，1： | 2 |
| 8 | Distribution of phthalate esters in urban soils of subtropical city, Guangzhou, China显示文摘 | Feng Zeng Kunyan Cui Zhiyong Xie Lina Wu Danling Luo Lixuan Chen Yujun Lin Min Liu Gouxuan Sun | 2008 | Journal of Hazardous Materials2008，，2： | 2 |
| 9 | Phthalate esters (PAEs): Emerging organic contaminants in agricultural soils in peri-urban areas around Guangzhou, China显示文摘 | Feng Zeng Kunyan Cui Zhiyong Xie Lina Wu Min Liu Guoquan Sun Yujun Lin Danling Luo Zunxiang Zeng | 2008 | Environmental Pollution2008，，2： | 2 |
| 10 | Generation and functional characterization of a conditional Pumilio2 null allele显示文摘The highly conserved RNA binding protein PUF(Pumilio/FBF) family is present throughout eukaryotes from yeast to mammals, with critical roles in development, fertility and the nervous system. However, the function of the mammalian PUF family members remains underexplored. Our previous study reported that a gene-trap mutation of Purm2 results in a smaller testis but does not impact fertility and viability. Although the gene-trap mutation disrupted the key functional domain of PUM protein-PUM-HD(Pumilio homology domain), but still produced a chimeric Pum2-β-geo protein containing part of PUM2, raising a question if such a chimeric protein may provide any residual function or contribute to the reproductive phenotype. Here, we report the generation of a conditional PUM2 allele,when knocked out, producing no residual PUM2 and hence a complete loss-of-function allele. We also uncovered small but significant reduction of male fertility and viability in the mutants, suggesting requirement of PUM2 for male fertility and viability. | Kaibo Lin Shikun Zhang Jieli Chen Ding Yang Mengyi Zhu Eugene Yujun Xu | 2018 | The Journal of Biomedical Research2018，32，6： | 1 |
| 11 | Occurrence of phthalate esters in water and sediment of urban lakes in a subtropical city, Guangzhou, South China显示文摘 | Feng Zeng Kunyan Cui Zhiyong Xie Min Liu Yangjie Li Yujun Lin Zunxiang Zeng Fangbai Li | 2007 | Environment International2007，，3： | 1 |
| 12 | Metal-film-assisted ultra-clean transfer of single-walled carbon nanotubes显示文摘 | Yujun He Dongqi Li Tianyi Li Xiaoyang Lin Jin Zhang Yang Wei Peng Liu Lina Zhang Jiaping Wang Qunqing Li Shoushan Fan Kaili Jiang | 2014 | Nano Research2014，7，7： | 1 |
| 13 | Phthalate esters (PAEs): Emerging organic contaminants in agricultural soils in peri-urban areas around Guangzhou, China显示文摘 | Feng Zeng Kunyan Cui Zhiyong Xie Lina Wu Min Liu Guoquan Sun Yujun Lin Danling Luo Zunxiang Zeng | 2008 | Environmental Pollution2008，，2： | 1 |
| 14 | Transparent Photochromic Wood Composites Incorporating AgBr Nanoparticles for UV-shielding Applications显示文摘Transparent wood(TW)is a wood-based biomaterial with several advantages,such as high optical transmittance,low thermal conductivity,and tunable haze.TW is functionalized according to its transparency to broaden its applications in different fields.Several studies have examined wood functionalization in recent years;however,few studies have reported photochromic TW(PTW)for ultraviolet(UV)-shielding window applications.Herein,PTW was obtained by infiltrating the delignified wood template with photochromic silver bromide(AgBr)nanoparticles and a pre-polymerized methyl methacrylate(MMA)mixture solution.The obtained PTW can adjust the luminous flux on change in the color in the visible light region.The photochromic properties were examined,and the optical properties of the composites were characterized using UV-Vis spectrophotometry.Light transmittance of PTW was up to 86.5%at 800 nm before UV irradiation,and it decreased to 70.1%at 800 nm after UV irradiation,as the wood color changed from colorless to dark purple under UV irradiation.Thus,this work not only achieves high-value utilization of wood,but also produces a new material that can be used in varied fields,such as UV-shielding,energy saving,and smart building. | Cong Zhang Yujun Ma Tao Lin Xuefeng Yin Xiaoyao Wei Zhongxiang Wang | 2021 | Paper And Biomaterials2021，6，4： | 1 |
| 15 | Theranostic nanosystem mediating cascade catalytic reactions for effective immunotherapy of highly immunosuppressive and poorly penetrable pancreatic tumor显示文摘The dense desmoplastic stroma and immunosuppressive microenvironment of pancreatic cancer hinder the penetration of drugs and induce a considerable resistance to conventional chemoradiotherapy. Although nanomedicine has recently shown attractive potential in cancer immunotherapy, it remains a great challenge to achieve efficient drug delivery and potent immune activation.Here, a stimuli-responsive nanosystem, comprising superparamagnetic iron oxide nanocrystals and nitric oxide(NO) donors,was developed for in-situ triggered catalytic cascade reaction to produce abundant free radicals and remodel the anti-tumor immunity. The nanosystem was activated in the tumor microenvironment to produce NO which dilated the tumor vasculature for efficient drug delivery, and the iron oxide nanocrystals catalyzed the reaction of NO to generate reactive oxygen-nitrogen species(RONS) with high cytotoxicity. Moreover, owing to the catalytic cascade reactions mediated by the nanosystem, the tumor associated macrophages(TAMs) were converted to a proinflammatory M1 phenotype and tumor infiltration of effector T cells was promoted to result in potent anti-tumor immunotherapy which could be readily monitored with magnetic resonance imaging(MRI). | Gengjia Chen Yujun Cai Bo Li Minzhao Lin Xiaobin Wang Zhiyong Wang Xintao Shuai | 2022 | Science China Chemistry2022，65，7： | 1 |
| 16 | Synthesis and electroluminescent properties of a novel terbium complex显示文摘 | Zheng Youxuan Shi Congyun Liang Yujun Lin Qin Guo Chuan Zhang Hongjie | 2000 | Synthetic Metals2000，114，： | 1 |
| 17 | Occurrence of phthalate esters in water and sediment of urban lakes in a subtropical city, Guangzhou, South China显示文摘 | Feng Zeng Kunyan Cui Zhiyong Xie Min Liu Yangjie Li Yujun Lin Zunxiang Zeng Fangbai Li | 2007 | Environment International2007，，3： | 1 |
| 18 | Expression and significance of leptin receptor,p-STAT3 and p-AKT in diffuse large B-cell lymphoma显示文摘 | Lin S Yujun L Xiaoming X | 2014 | Acta Histochem2014，116，： | 1 |
| 19 | Dissection the endocytic routes of viral capsid proteins-coated upconversion nanoparticles by single-particle tracking显示文摘Real-time exploring the cellular endocytic pathway of viral capsid proteins(VCPs)functionalized nanocargos at the single-particle level can provide deep insight into the kinetic information involved in virus infection.In this work,porcine circovirus type 2(PCV2)VCPs with different functions are modified onto the surface of upconversion nanoparticles(VCPs-UCNPs)to investigate the cellular internalization process in real-time.Clathrin-mediated endocytosis is found to be the essential uptake mechanism for these VCPs-UCNPs.Besides,it is verified that P_(1)-UCNPs(PCV2 VCPs with nuclear localization signal,namely P1)can be easily assembled close to the perinuclear area,which is different from that of P_(2)-UCNPs(PCV2 VCPs without nuclear localization signal,namely P_(2)).Interestingly,multistep entry processes are observed.Particularly,confined diffusion is observed during the transmembrane process.The intracellular transport of VCPs-UCNPs is dependent on microtubules toward the cell interior.During this process,P_(1)-UCNPs display increased velocities with active transport,while diffusion much faster around the perinuclear area.But for P_(2)-UCNPs,there are only two phases involved in their endocytosis process.This study presents distinct dynamic mechanisms for the nanocargos with different functions,which would make a useful contribution to the development of robust drug delivery systems. | Yujun Ning Lin Wei Shen Lin Yifan Jiang Naidong Wang Lehui Xiao | 2022 | Chinese Chemical Letters2022，33，10： | 1 |
| 20 | True-color real-time imaging and spectroscopy of carbon nanotubes on substrates using enhanced Rayleigh scattering显示文摘白光照亮的围单人赛的碳 nanotubes (SWCNT ) 应该由于散布的回声瑞利显得有颜色。然而,底层上的 SWCNT 的真彩成像没被报导,因为 SWCNT 和散布的强壮的底层的极其低的散布紧张。这里,我们证明散布的瑞利能被接口偶极子改进效果极大地提高。底层上的因而丰富多彩的 SWCNT 能被宽地 supercontinuum 激光照明直接在一台光显微镜下面想象,它便于单个 SWCNT 的高产量 chirality 赋值。这条途径,称为的瑞利成像显微镜学,没被限制为 SWCNT,但是对许多 nanomaterials 广泛地适用,它使丰富多彩的 nanoworld 能在光显微镜下面被探索。 | Wenyun Wu Jingying Yue Xiaoyang Lin Dongqi Li Fangqiang Zhu Xue Yin Jun Zhu Jiangtao Wang Jin Zhang Yuan Chen Xinhe Wang Tianyi Li Yujun He Xingcan Dai Peng Liu Yang wei Jiaping Wang Wei Zhang Yidong Huang Li Fan Lina Zhang Qunqing Li Shoushan Fan Kaili Jiang | 2015 | Nano Research2015，8，8： | 1 |
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