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Genomic research for important pathogenic bacteria in china

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Science china(Life sciences) 2009年第1期52卷 50-63页

作者： YANG RuiFu1,GUO XiaoKui2,YANG Jian3,JIANG YongQiang1,PANG Bo4,CHEN Chen5,YAO YuFeng2,QIN JinHong2 & LI QingTian2 1 laboratory of Analytical Microbiology,state key laboratory of pathogen and Biosecurity,beijing institute of Microbiology and Epidemiology,beijing 100071,china 2 Department of medical Microbiology and Parasitology,institutes of medical sciences,Shanghai Jiao Tong University School of Medicine,Shanghai 200025,china 3.state key laboratory for molecular virology and genetic engineering,institute of pathogen biology,chinese academy of medical sciences,beijing 100176,china 4 state key laboratory for Infectious Disease Prevention and Control,institute for Communicable Disease Control and Prevention,chinese Center for Disease Control and Prevention,beijing 102206,china 5 beijing Genomics institute at Shenzhen,Shenzhen 518083,china 1. laboratory of Analytical Microbiology State Key Laboratory of Pathogen and Biosecurity Beijing Institute of Microbiology and Epidemiology Beijing 100071 China 2. Department of medical Microbiology and Parasitology Institutes of Medical Sciences Shanghai Jiao Tong University School of Medicine Shanghai 200025 China 3. state key laboratory for molecular virology and genetic engineering Institute of Pathogen Biology Chinese Academy of Medical Sciences Beijing 100176 China 4. state key laboratory for Infectious Disease Prevention and Control Institute for Communicable Disease Control and Prevention Chinese Center for Disease Control and Prevention Beijing 102206 China 5. beijing Genomics institute at Shenzhen Shenzhen 518083 China

Rapid accumulation of bacterial genomic data offered an unprecedented opportunity to understand bacterial biology from a holistic view of *** can thus closely look at the way in which a pathogen is evolved,and these data has been applied to molecular epidemiology and microbial forensics,and screening of novel diagnostic,vaccine and drug *** newly developed high-throughput low-cost sequencing technologies,such as 454,Solexa and SOLiD,will promote the acquisition and application of genomic data in new research areas that we dared not imagine previously,such as the metagenomics of human gastric-intestinal tract,for better and comprehensive understanding of human health and disease.

关键词： genome pathogenic bacteria sequencing application

Generation of a recombinant herpes simplex virus which can provide packaging function for recombinant adeno-associated virus

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chinese Science Bulletin 1999年第8期44卷 715-719页

作者： WU Zhijian, WU Xiaobing and HOU Yundestate key laboratory for molecular virology and genetic engineering , institute of virology , chinese academy of Preventive Medicine , beijing 100052, china Corresponding author state key laboratory for molecular virology and genetic engineering Institute of Virology Chinese Academy of Preventive Medicine Beijing China

The generation of a recombinant HSV (rHSV) that can provide packaging function for rAAV production is described. A set of cosmids including cos48, cos28, cos6, cos14 and cos56, which represents the HSV-1 genome was used for generation of this rHSV. Rep and cap genes of AAV-2 were inserted into Xba Ⅰ site of UL2 gene on cos6, generating cos6-rcΔUL2. After being digested with Pac Ⅰ , cos6-rcΔUL2 and the other 4 cosmids were cotrans-fected into BHK-21 cells. The recombinant virus HSV1-rc/ΔUL2 carrying rep and cap genes was generated due to the homologous recombination of the 5 cosmids. The results showed that the existence of rep and cap genes on this rHSV was stable from passage to passage and the rHSV could support the packaging of rAAV either in cells transiently transfected with AAV vector or in stable cell line harboring AAV vector. Further modification of this rHSV and optimization of conditions involved in rAAV preparation may lead to a large-scale production of rAAV in the near future.

关键词： recombinant AAV packaging function recombinant HSV.

Study of the effect of atorvastatin on the interaction between ICAM-1 and CD11b by live-cell single-molecule force spectroscopy

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Science china Chemistry 2010年第4期53卷 752-758页

作者： LI Yi1, SHI XiaoLi2, LIU HuiLiang1, YI ShaoQiong3, ZHANG XueJie2 & FANG XiaoHong2 1Department of Cardiology, the General Hospital of chinese People’s Armed Police Forces, beijing 100039, china 2beijing National laboratory for molecular sciences institute of Chemistry, chinese academy of sciences, beijing 100190, china 3state key laboratory of pathogen and Biosecurity beijing institute of Microbiology and Epidemiology, beijing 100071, china 1. Department of Cardiology the General Hospital of Chinese People’s Armed Police Forces Beijing 100039 China2. Beijing National Laboratory for Molecular Sciences Chinese Academy of Sciences Beijing 100190 China4. Institute of Chemistry Chinese Academy of Sciences Beijing 100190 China3. State Key Laboratory of Pathogen and Biosecurity Beijing 100071 China5. Beijing Institute of Microbiology and Epidemiology Beijing 100071 China

The interaction between the cell adhesion molecule CD11b and its ligand ICAM-1 plays an important role in inflammatory responses in the disease of atherosclerosis. Atorvastatin is a commonly prescribed statin drug which has been considered as one of the most potent therapeutic agents for atherosclerosis due to its lipid-lowering effect. Recently, there is a growing body of evidence that atorvastatin has anti-inflammatory effect. We have applied the advanced method of live-cell single-molecule force spectroscopy to investigate the effect of atorvastatin on adhesion force between ICAM-1 and CD11b. Our result showed that single-molecule binding force of ICAM-1 and CD11b detected by AFM in the living cells was about 40 pN, and atorvastatin did not affect this force by blocking ICAM-1 or CD11b. This was different from the ICAM-1 monoclonal antibody, which could directly reduce the binding force of ICAM-1 and CD11b. Flow cytometry results revealed that atorvastatin pretreatment decreased the ICAM-1 expression in TNF-α activated HUVECs, which may contribute to its anti-inflammatory effect. The study provides a new approach to study anti-inflammatory mechanism for clinic drugs.

关键词： atherosclerosis atorvastatin atomic force microscopy single-molecule force spectroscopy protein-protein interaction

Research progress on Drosophila visual cognition in china

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Science china(Life sciences) 2010年第3期53卷 374-384页

作者： GUO AiKe1,2,ZHANG Ke1,PENG YueQin1 & XI Wang1 1 institute of Neuroscience,state key laboratory of Neuroscience,Shanghai institutes for Biological sciences,chinese academy of sciences,Shanghai 200031,china 2 state key laboratory of Brain and Cognitive Science,institute of Biophysics,chinese academy of sciences,beijing 100101,china 1. institute of Neuroscience State Key Laboratory of Neuroscience Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200031 China2. State Key Laboratory of Brain and Cognitive Science Institute of Biophysics Chinese Academy of Sciences Beijing 100101 China

Visual cognition,as one of the fundamental aspects of cognitive neuroscience,is generally associated with high-order brain functions in animals and ***,as a model organism,shares certain features of visual cognition in common with mammals at the genetic,molecular,cellular,and even higher behavioral *** learning and memory to decision making,Drosophila covers a broad spectrum of higher cognitive behaviors beyond what we had *** with powerful tools of genetic manipulation in Drosophila,an increasing number of studies have been conducted in order to elucidate the neural circuit mechanisms underlying these cognitive behaviors from a genes-brain-behavior *** goal of this review is to integrate the most important studies on visual cognition in Drosophila carried out in china's Mainland during the last decade into a body of knowledge encompassing both the basic neural operations and circuitry of higher brain function in ***,we consider a series of the higher cognitive behaviors beyond learning and memory,such as visual pattern recognition,feature and context generalization,different feature memory traces,salience-based decision,attention-like behavior,and cross-modal leaning and *** discuss the possible general gain-gating mechanism implementing by dopamine-mushroom body circuit in fly's visual *** hope that our brief review on this aspect will inspire further study on visual cognition in flies,or even beyond.

关键词： Visual invariance recognition visual memory traces feature and context generalization selective attention cross-modality memory integration salience-based decision making

Evolution of cd59 gene in mammals

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Science china(Life sciences) 2007年第6期50卷 773-779页

作者： GONG YuanYing1,2, PENG MinSheng1,2, ZHOU WeiPing1,3,4 & ZHANG YaPing1,4 1 state key laboratory of genetic Resources and Evolution, Kunming institute of Zoology, chinese academy of sciences, Kunming 650223, china 2 Graduate University of the chinese academy of sciences, beijing 100049, china 3 molecular and Cell biology, University of Science and Technology of china, Hefei 230026, china 4 laboratory for Conservation and Utilization of Bio-resources, Yunnan University, Kunming 650091, china state key laboratory of genetic Resources Evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming 650223 China Graduate University of the chinese academy of sciences Beijing 100049 China molecular Cell biology University of Science Technology of china Hefei 230026 China laboratory for Conservation Utilization of Bio-resources Yunnan University Kunming 650091 China

The CD59-coding sequences were obtained from 5 mammals by PCR and BLAST, and combined with the available sequences in GenBank, the nucleotide substitution rates of mammalian cd59 were calcu- lated. Results of synonymous and nonsynonymous substitution rates revealed that cd59 experienced negative selection in mammals overall. Four sites experiencing positive selection were found by using "site-specific" model in PAML software. These sites were distributed on the molecular surface, of which 2 sites located in the key functional domain. Furthermore, "branch-site-specific" model detected 1 positive site in cd59a and cd59b lineages which underwent accelerated evolution caused by positive selection after gene duplication in mouse.

关键词： cd59, evolution, positive selection

Overexpression of p27^(KIP1)induced cell cycle arrest in G_1 phase and subsequent apoptosis in HCC-9204 cell line

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World Journal of Gastroenterology 2000年第4期6卷 513-521页

作者： Jiang Li Xin Ke Yang Xin Xin Yu Meng Liang Ge Wen Liang Wang Jie Zhang Yun De Hou Department of Pathology,Fourth Military medical University,Xi’an 710033,Shaanxi Province,china state key laboratory for molecular virology and genetic engineering,beijing 100052,china Department of Dermatology,beijing Hospital,beijing 100016,china institute of Radiation Medicine,beijing 100085,china 第四军医大学陕西西安中国预防医学科学院病毒所北京中国预防医学科学院病毒所分子病毒基因工程国家重点实验室北京北京医院北京解放军军事医学科学院放射医学所北京

AIM We have previously reported that inducible over-expresaion of Bak may prolong cell cycle in G1 phase and lead to apoptosis in HCC-9204 cells. This study is to investigate whether p27KIP1 plays an important role in this process. MEHODS In order to elucidate the exact function of p27KIP1 in this process, a zinc inducible p27KIP1 stable transfectant and transient p27KIP1- GFP fusion transfectant were constructed. The effects of inducible p27KIP1 on cell growth, cell cycle arrest and apoptosis were examined in the mock, control pMD vector, and pMD-KIP1 transfected HCC-9204 cells. RESULTS This p27KIP1-GFP transfectant may transiently express the fusion gene. The cell growth was reduced by 35% at 48 h of p27KIP1 induction with zinc treatment as determined by trypan blue exclusion assay. These differences remained the same after 72 h of p27KIP1 expression, p27KIP1 caused cell cycle arrest after 24 h of induction, with 40% increase in G1 population. Prolonged p27KIP1 expression in this cell line induced apoptotic cell death reflected by TUNEL assay. Fourty-eight h and 72 h of p27KIP1 expression showed a characteristic DNA ladder on agarose gel electrophoresis.

关键词： p27^(KIP1) apoptosis cell cycle inducible expression system carcinoma hepatocellular liver neoplasms

Cloning and characterization of an up-regulated GA 20-oxidase gene in hybrid maize

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Progress in Natural Science:Materials International 2009年第2期19卷 161-166页

作者： Jinkun Du,Yingyin Yao,Zhongfu Ni,Qixin Sun Department of Plant genetics & Breeding and state key laboratory for Agrobiotechnology,key laboratory of Crop Genomics and genetic Improvement,Ministry of Agriculture/beijing key laboratory of Crop genetic Improvement,china Agricultural University,beijing 100094,china [a]Department of Plant genetics & Breeding and state key laboratory for Agrobiotechnology Key Laboratory of Crop Genomics and Genetic Improvement Ministry of Agriculture/Beijing Key Laboratory of Crop Genetic Improvement China Agricultural University Beijing 100094 China

Previous studies revealed that GA content and metabolism are positively correlated with a faster shoot growth rate of hybrid,and recently,genes participating in both GA biosynthesis and GA response pathways were also found to be differentially expressed between wheat hybrid and its parental inbreds. In this study,an up-regulated GA 20-oxidase gene in a maize hybrid,designated ZmGA20,was cloned. ZmGA20 contains an open reading frame (ORF) encoding 391 amino acid residues. BLASTX searches in GenBank revealed that the ZmGA20 is homologous to the sequences of GA20ox proteins from different species,and analysis also indicated that ZmGA20 had typical features of GA 20-oxidase proteins,including a "LPWKET" sequence. Semi-quantitative RT-PCR analysis showed that ZmGA20 was expressed in different tissues and/or organs. The expression level of ZmGA20 in the hybrid was higher than that in two parents (in roots,leaves,stems and embryo,and ears). The abundance of ZmGA20 transcript was equal to that of the highly expressed parents,which provided molecular evidence for the observed GA content heterosis in maize hybrids.

关键词： GA 20-oxidase Gene expression Maize Heterosis

Comparison between gene expression of conidia and germinating phase in Trichophyton rubrum

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Science china(Life sciences) 2007年第3期50卷 377-384页

作者： YANG Li1,2, WANG LingLing2, PENG JunPing2, YU Lu2, LIU Tao2, LENG WenChuan2, YANG Jian2, CHEN LiHong2 , ZHANG WenLiang2, ZHANG Qian2, QI YiPeng1 & JIN Qi1,2,3 1 College of Life sciences, Wuhan University, Wuhan 430072, china 2 state key laboratory for molecular virology and genetic engineering, chinese Center for Disease Control and Prevention, beijing 100176, china 3 institute of pathogen biology, chinese academy of medical sciences, beijing 100730, china 1. College of Life sciences Wuhan University Wuhan 430072 China 2. state key laboratory for molecular virology and genetic engineering Chinese Center for Disease Control and Prevention Beijing 100176 China 3. institute of pathogen biology Chinese Academy of Medical Sciences Beijing 100730 China

Trichophyton rubrum is a dominating superficial dermatophyte, whose conidial germination is corre- lated to pathopoiesis and a highly important developmental process. To investigate the changes of physiology, biochemistry and cytology during the germination, we selected 3364 function identified ESTs from T. rubrum cDNA library to construct cDNA microarrays, and compared the gene expression levels of conidia and germinating phase. Data analysis indicated that 335 genes were up-regulated during the germination, which mainly encoded translated, modified proteins and structural proteins. The constituents of cell wall and cell membrane were synthetized abundantly, suggesting that they are the foundation of cell morphogenesis. The ingredients of the two-component signal transduction sys- tem were up-regulated, presuming that they were important for the conidial germination. Genes of various metabolic pathways were expressed prosperously, especially the genes that participated in glycolysis and oxidative phosphorylation were up-regulated on the whole, demonstrating that in the environment with sufficient oxygen and glucose, conidia obtained energy through aerobic respiration. This paper provides important clues which are helpful to understanding the changes in gene expres- sion, signal conduction and metabolism characteristics during T. rubrum conidial germination, and possess significant meaning to the study of other superficial dermatophytes.

关键词： Comparison between gene expression of conidia and germinating phase in Trichophyton rubrum gene cDNA

molecular mapping of QTLs for root response to phosphorus deficiency at seedling stage in wheat (Triticum aestivum L.)

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Progress in Natural Science:Materials International 2007年第10期17卷 1177-1184页

作者： Li Zhenxing, Ni Zhongfu, Peng Huiru, Liu Zhiyong, Nie Xiuling, Xu Shengbao, Liu Gang and Sun Qixin(key laboratory of Crop Heterosis and Utilization and state key laboratory for Agrobiotechnology, key laboratory of Crop Genomics and genetic Improvement, beijing key laboratory of Crop genetic Improvement, Department of Plant genetics & Breeding, china Agricultural University, beijing 100094, china) key laboratory of Crop Heterosis and Utilization and state key laboratory for Agrobiotechnology Key Laboratory of Crop Genomics and Genetic Improvement Beijing Key Laboratory of Crop Genetic Improvement Department of Plant Genetics & Breeding China Agricultural University Beijing 100094 China

Phosphorus (P) deficiency in the soil is one of the major abiotic stresses that limit plant growth and crop productivity throughout the world. Development of cultivars with improved P-deficiency tolerance is an efficient strategy for sustainable agriculture. Plant roots play an important role in crop growth and development, especially in nutrient uptake and improvement of P-efficiency. Mapping quantitative trait loci (QTLs) for root traits and their response to low P stress at seedling stage will facilitate the development of P-efficient wheat cultivars. In this study, 30 QTLs (LOD>2.0) were mapped for the three root traits, such as root length, root number and root dry matter under different P supply conditions and their response to P-stress. These QTLs were distributed on 14 chromosomes, with each of the 5 QTLs explaining more than 10% phenotype variance. Analyses showed that root traits and their response to P-deficiency were controlled by different QTLs. In addition, alleles with positive effects were separated on both parents, and wheat cultivars with improved P-efficiency could be developed by accumulating these positive effect alleles together.

关键词： QTLs roots wheat seedling RIL P-deficiency.