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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 | Busting the efficiency of SAPO-34 catalysts for the methanol-to-olefin conversion by post-synthesis methods显示文摘As an effective non-petroleum based process for producing light olefins, the methanol-to-olefin(MTO) route has become an indispensable alternative to the industrial production of light olefins. The silicoaluminophosphate SAPO-34 zeolite(CHA-type structure) has proven to be an efficient industrial catalyst for the production of ethylene and propylene by the MTO reaction. However, the inherent structure and related diffusion limitations of SAPO-34 limit the mass transport and thus cause rapid deactivation of the catalyst. Fabrication of hierarchical SAPO-34 zeolite is one of the most effective strategies to address the intrinsic diffusion limitation. As simple, inexpensive, and efficient approach, the post-synthetic route has attracted considerable attention and widely used to introduce secondary meso-/macropores into the microporous SAPO-34 material. Significant effort has been dedicated to the development of post-synthesis strategies to prepare hierarchical SAPO-34 zeolite, thereby enhancing its catalytic performance in the MTO process. This mini-review addresses the post-synthesis preparation of hierarchical SAPO-34 catalysts and their MTO performance. Furthermore, some current problems and prospects of the post-synthesis route to hierarchical SAPO-34 catalysts are also revised. We expect this minireview to inspire the more efficient preparation of hierarchical SAPO-34 catalysts for the MTO process. | Guoju Yang Ji Han Yujun Huang Xiaoxin Chen Valentin Valtchev | 2020 | Chinese Journal of Chemical Engineering2020，28，8： | 7 |
| 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 | Alterations in gut microbiota and metabolites associated with altitude-induced cardiac hypertrophy in rats during hypobaric hypoxia challenge显示文摘The gut microbiota is involved in host responses to high altitude.However,the dynamics of intestinal microecology and their association with altitude-related illness are poorly understood.Here,we used a rat model of hypobaric hypoxia challenge to mimic plateau exposure and monitored the gut microbiome,short-chain fatty acids(SCFAs),and bile acids(BAs)over 28 d.We identified weight loss,polycythemia,and pathological cardiac hypertrophy in hypoxic rats,accompanied by a large compositional shift in the gut microbiota,which is mainly driven by the bacterial families of Prevotellaceae,Porphyromonadaceae,and Streptococcaceae.The aberrant gut microbiota was characterized by increased abundance of the Parabacteroides,Alistipes,and Lactococcus genera and a larger Bacteroides to Prevotella ratio.Trans-omics analyses showed that the gut microbiome was significantly correlated with the metabolic abnormalities of SCFAs and BAs in feces,suggesting an interaction network remodeling of the microbiome-metabolome after the hypobaric hypoxia challenge.Interestingly,the transplantation of fecal microbiota significantly increased the diversity of the gut microbiota,partially inhibited the increased abundance of the Bacteroides and Alistipes genera,restored the decrease of plasma propionate,and moderately ameliorated cardiac hypertrophy in hypoxic rats.Our results provide an insight into the longitudinal changes in intestinal microecology during the hypobaric hypoxia challenge.Abnormalities in the gut microbiota and microbial metabolites contribute to the development of high-altitude heart disease in rats. | Zhiyuan Pan Yichen Hu Zongyu Huang Ni Han Yan Li Xiaomei Zhuang Jiye Yin Hui Peng Quansheng Gao Wenpeng Zhang Yong Huang Yujun Cui Yujing Bi Zhenjiang Zech Xu Ruifu Yang | 2022 | Science China(Life Sciences)2022，65，10： | 5 |
| 6 | Cooperation between Pt and Ru on RuPt/AC bimetallic catalyst in the hydrogenation of phthalates显示文摘RuPt/AC bimetallic catalysts were pre pared by two-step incipient impregnation method and evaluated in the hydrogenation of phthalates.According to the characterization results,well dispersed Ru Pt bimetallic nanoparticles were formed on the catalyst,and the strong interaction between the two metals resulted in the formation of RuPt alloy.It was found that Ru can donate electrons to Pt on RuPt alloy nanoparticles,leading to the formation of electron-deficient Ru which significantly promotes the hydrogenation rate of dioctyl phthalate and improves the selectivity of dioctyl di-2-ethylhexylcyclohexane-1,4-dicarboxylate by accelerating the further hydrogenation of intermediate products.The bimetallic RuPt catalyst also presented excellent stability and versatility in the hydrogenation of phthalates,demonstrating its prospective future in the hydrogenation of aromatic ring contained compounds. | Yan Xu Chenguang Wu Yan Wang Ying Zhang Han Sun Haijun Chen Yujun Zhao | 2021 | Chinese Chemical Letters2021，32，1： | 3 |
| 7 | Transcriptomic Response to Yersinia pestis:RIG-I Like Receptor Signaling Response Is Detrimental to the Host against Plague显示文摘Bacterial pathogens have evolved various mechanisms to modulate host immune responses for successful infection.In this study,RNAsequencing technology was used to analyze the responses of human monocytes THP1 to Yersinia pestis infection.Over 6000 genes were differentially expressed over the 12 h infection.Kinetic responses of pathogen recognition receptor signaling pathways,apoptosis,antigen processing,and presentation pathway and coagulation system were analyzed in detail.Among them,RIG-I-like receptor(RLR) signaling pathway,which was established for antiviral defense,was significantly affected.Mice lacking MAVS,the adaptor of the RLR signahng pathway,were less sensitive to infection and exhibited lower IFN-P production,higher Thl-type cytokines IFN-y and IL-12 production,and lower Th2-type cytokines EL-4 and IL-13 production in the serum compared with wild-type mice.Moreover,infection of pathogenic bacteria other than Y.pestis also altered the expression of the RLR pathway,suggesting that the response of RLR pathway to bacterial infection is a universal mechanism. | Zongmin Du Huiying Yang Yafang Tan Guang Tian Qingwen Zhang Yujun Cui Yanfeng Yan Xiaohong Wu Zuyun Chen Shiyang Cao Yujing Bi Yanping Han Xiaoyi Wang Yajun Song Ruifu Yan | 2014 | Journal of Genetics and Genomics2014，41，7： | 2 |
| 8 | Monitoring of Gene Expression Profiles and Isolation of Candidate Genes Involved in Pollination and Fertilization in Rice (Oryza Sativa L.) with a 10K cDNA Microarray显示文摘 | Lefu Lan Wei Chen Ying Lai Jinfeng Suo Zhaosheng Kong Can Li Ying Lu Yujun Zhang Xiangyu Zhao Xiansheng Zhang Yansheng Zhang Bin Han Jing Cheng Yongbiao Xue | 2004 | Plant Molecular Biology2004，，4： | 1 |
| 9 | A photonic wire-based directional coupler based on SOl 显示文摘 | Quan Yujun Han Peide Ran Qijiang | 2008 | Optics Communications2008，281，： | 1 |
| 10 | Wormlike micelles formed by sodium erucate in the presence of a tetraalkylammonium hydrotrope显示文摘 | Feng Yujun Han Yixiu Sun Huanquan | 2011 | J Phys Chem B2011，115，： | 1 |
| 11 | Extended MLST-based population genetics and phylogeny of Vibrio parahaemolyticus with high levels of recombination显示文摘 | YAN Yanfeng CUI Yujun HAN Haihong | 2011 | International Journal of Food Microbiology2011，145，1： | 1 |
| 12 | Presence and localization of antithrombin and its regulation after acute lipopolysaccharide exposure in amphioxus, with implications for the origin of vertebrate liver显示文摘 | Yujun Liang Shicui Zhang Limin Lun Li Han | 2006 | Cell and Tissue Research2006，，3： | 1 |
| 13 | Y ersinia protein kinase A phosphorylates vasodilator‐stimulated phosphoprotein to modify the host cytoskeleton显示文摘 | Yuehua Ke Yafang Tan Na Wei Fen Yang Huiying Yang Shiyang Cao Xiaohui Wang Jian Wang Yanping Han Yujing Bi Yujun Cui Yanfeng Yan Yajun Song Xiaoming Yang Zongmin Du Ruifu Yang | 2015 | Cell Microbiol2015，，： | 1 |
| 14 | Comparison of class 2 transposable elements at superfamily resolution reveals conserved and distinct features in cereal grass genomes显示文摘 | Han Yujun Qin Shanshan Wessler S R | 2013 | BMC Genomics2013，14，： | 1 |
| 15 | Fusobacterium nucleatum Promotes Colorectal Carcinogenesis by Modulating E-Cadherin/β-Catenin Signaling via its FadA Adhesin显示文摘 | Mara Roxana Rubinstein Xiaowei Wang Wendy Liu Yujun Hao Guifang Cai Yiping W. Han | 2013 | Cell Host & Microbe2013，，2： | 1 |
| 16 | 消化道神经内分泌肿瘤临床病理特征及预后因素分析(英文)显示文摘Objective: The aim of the study was to analyze the clinicopathologic characteristics of gastroenteropancreatic neuroendocrine neoplasm(GEP-NEN) and to explore the prognostic factors for patients and differences of immunohistochemical markers between neuroendocrine tumor(NET) and neuroendocrine carcinoma(NEC). Methods: Retrospective reviews were conducted for the charts of 119 patients with GEP-NEN at the Affiliated Hospital of Qingdao University(China) from August 2003 to December 2013. Kaplan-Meier method was used to do the overall survivals analysis for the patients at different levels of predictive factors. Meanwhile, Cox proportional hazard model was used to select independent risk factors of survival. Analysis of variance was used to compare the expression of immunohistochemical markers among different pathological grades. Results: Among 119 patients, pancreas(45/119, 37.82%) and rectum(33/119, 27.73%) were mostly involved. The onset age of GEP-NEN in female group was younger than that of the male group. There were 13 deaths(10.92%) during 18.9(0.1–133.4) months follow-up period. Multivariate analysis indicated that neural invasion, gender and pathological grades of NET and NEC were independent risk factors. In neuroendocrine neoplasm(NEN), Syn expression in G2 was higher than G1 and G3, while Cg A showed no significant difference. All markers showed no significant differences between NET and NEC. Conclusion: GEP-NEN may occur at multiple sites of digestive system and lack specific clinical manifestations. Syn expression detected for the prognosis of G1, G2 and G3 tumors have clinical significance. Neural invasion, sex and pathological grades were independent prognostic factors for GEP-NEN patients. No significant difference was found in different pathological grades of NET and NEC. | Ping Yang Jie Liu Dongliang Lin Haiyang Fu Jing Chu Feng Li Guiyan Han Yujun Li Weiwei Fu | 2014 | The Chinese-German Journal of Clinical Oncology2014，13，12： | 1 |
| 17 | Monitoring of Gene Expression Profiles and Isolation of Candidate Genes Involved in Pollination and Fertilization in Rice (Oryza Sativa L.) with a 10K cDNA Microarray显示文摘 | Lefu Lan Wei Chen Ying Lai Jinfeng Suo Zhaosheng Kong Can Li Ying Lu Yujun Zhang Xiangyu Zhao Xiansheng Zhang Yansheng Zhang Bin Han Jing Cheng Yongbiao Xue | 2004 | Plant Molecular Biology2004，，4： | 1 |
| 18 | Monitoring of Gene Expression Profiles and Isolation of Candidate Genes Involved in Pollination and Fertilization in Rice (Oryza Sativa L.) with a 10K cDNA Microarray显示文摘 | Lefu Lan Wei Chen Ying Lai Jinfeng Suo Zhaosheng Kong Can Li Ying Lu Yujun Zhang Xiangyu Zhao Xiansheng Zhang Yansheng Zhang Bin Han Jing Cheng Yongbiao Xue | 2004 | Plant Molecular Biology2004，，4： | 1 |
| 19 | Carbon-coated Ni-Co alloy catalysts:preparation and performance for in-situ aqueous phase hydrodeoxygenation of methyl palmitate to hydrocarbons using methanol as the hydrogen donor显示文摘Carbon-coated Ni,Co and Ni-Co alloy catalysts were prepared by the carbonization of the metal doped resorcinol-formaldehyde resins synthesized by the one-pot extended Stöber method.It was found that the introduction of Co remarkably reduced the carbon microsphere size.The metallic Ni,Co,and Ni-Co alloy particles(mainly 10-12 nm)were uniformly distributed in carbon microspheres.A charge transfer from Ni to Co appeared in the Ni-Co alloy.Compared with those of metallic Ni and Co,the d-band center of the Ni-Co alloy shifted away from and toward the Fermi level,respectively.In the in-situ aqueous phase hydrodeoxygenation of methyl palmitate with methanol as the hydrogen donor at 330℃,the decarbonylation/decarboxylation pathway dominated on all catalysts.The Ni-Co@C catalysts gave higher activity than the Ni@C and Co@C catalysts,and the yields of n-pentadecane and n-C6-n-C16 reached 71.6%and 92.6%,respectively.The excellent performance of Ni-Co@C is attributed to the electronic interactions between Ni and Co and the small carbon microspheres.Due to the confinement effect of carbon,the metal particles showed high resistance to sintering under harsh hydrothermal conditions.Catalyst deactivation is due to the carbonaceous deposition,and the regeneration with CO_(2) recovered the catalyst reactivity. | Yinteng Shi Lin Ai Haonan Shi Xiaoyu Gu Yujun Han Jixiang Chen | 2022 | Frontiers of Chemical Science and Engineering2022，16，4： | 0 |
| 20 | Tumor-microenvironment activated duplex genome-editing nanoprodrug for sensitized near-infrared titania phototherapy显示文摘Near-infrared(NIR)-light-triggered nanomedicine, including photodynamic therapy(PDT)and photothermal therapy(PTT), is growing an attractive approach for cancer therapy due to its high spatiotemporal controllability and minimal invasion, but the tumor eradication is limited by the intrinsic anti-stress response of tumor cells. Herein, we fabricate a tumor-microenvironment responsive CRISPR nanoplatform based on oxygen-deficient titania(TiO_(2-x)) for mild NIR-phototherapy. In tumor microenvironment, the overexpressed hyaluronidase(HAase) and glutathione(GSH) can readily destroy hyaluronic acid(HA) and disulfide bond and releases the Cas9/sgRNA from TiO_(2-x) to target the stress alleviating regulators, i.e., nuclear factor E2-related factor 2(NRF2) and heat shock protein 90a(HSP90a), thereby reducing the stress tolerance of tumor cells. Under subsequent NIR light illumination, the TiO_(2-x) demonstrates a higher anticancer effect both in vitro and in vivo. This strategy not only provides a promising modality to kills cancer cells in a minimal side-effects manner by interrupting anti-stress pathways but also proposes a general approach to achieve controllable gene editing in tumor region without unwanted genetic mutation in normal environments. | Zekun Li Yongchun Pan Shiyu Du Yayao Li Chao Chen Hongxiu Song Yueyao Wu Xiaowei Luan Qin Xu Xiaoxiang Guan Yujun Song Xin Han | 2022 | Acta Pharmaceutica Sinica B2022，12，11： | 0 |
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