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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 laboratory of Analytical Microbiology State Key Laboratory of Pathogen and Biosecurity Beijing Institute of Microbiology and Epidemiology Beijing China Department of medical Microbiology and Parasitology Institutes of Medical Sciences Shanghai Jiao Tong University School of Medicine Shanghai China state key laboratory for molecular virology and genetic engineering Institute of Pathogen Biology Chinese Academy of Medical Sciences Beijing China state key laboratory for Infectious Disease Prevention and Control Institute for Communicable Disease Control and Prevention Chinese Center for Disease Control and Prevention Beijing China beijing Genomics institute at Shenzhen Shenzhen 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 Department of Cardiology the General Hospital of Chinese People’s Armed Police Forces Beijing China beijing National laboratory for molecular sciences Chinese Academy of Sciences Beijing China institute of Chemistry Chinese Academy of Sciences Beijing China state key laboratory of pathogen and Biosecurity Beijing China beijing institute of Microbiology and Epidemiology Beijing 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

Transgenic expression of DwMYB2 impairs iron transport from root to shoot in Arabidopsis thaliana

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Cell Research 2006年第10期16卷 830-840页

作者： Yan-Hong Chen~(1,2,3) Xue-Min Wu~5 Hong-Qing Ling~4 Wei-Cai Yang~1 ~1The key laboratory of molecular and Developmental biology,institute of genetics and Developmental biology,chinese academy of sciences,beijing 100101 china ~2Graduate University of the chinese academy of sciences,19 Yuquan Road,beijing 100049,china ~3School of Life Science,Nantong University,Nantong 226007 china ~4The state key laboratory of Plant Cell and Chromosome engineering,institute of genetics and Developmental biology,chinese academy of sciences,beijing 100101,china The key laboratory of molecular and Developmental biology Institute of Genetics and Developmental Biology Chinese Academy of Sciences Beijing China Graduate University of the chinese academy of sciences Beijing China School of Life Science Nantong University Nantong China Department of Botany University of British Columbia 6270 University Blvd. Vancouver Canada The state key laboratory of Plant Cell and Chromosome engineering Institute of Genetics and Developmental Biology Chinese Academy of Sciences Beijing China

In plant,iron uptake and homeostasis are tightly regulated to ensure its absorption from soil and to avoid excessiron in the *** genes involved in this process have been identified during past several years,but there are manyproblems remain unsolved in the genetic regulation of whole plant iron trafficking and *** transcriptionfactors contain tandem repeats of a～50 amino acid DNA-binding motif (R) and are involved in the regulation of manyaspects of plant development,hormone signaling and ***,we report that the ectopic expression of orchidR2R3-MYB gene DwMYB2 in Arabidopsis thaliana confers the transgenic plants hypersensitivity to iron *** DwMYB2 transgenic plants,the iron content in root is two-fold higher compared to that in wild-type root,while thereverse is true in *** imbalance of iron content in root and shoot suggested that the translocation of iron fromroot to shoot was affected by the expression of DwMYB2 in the transgenic ***,gene chip and reversetranscription-polymerase chain reaction analysis revealed that the ferric-chelate reductase gene,AtFRO2,and the irontransporter gene,AtIRT1 and AtIRT2,are up-regulated by DwMYB2 expression,while other potential iron transporterssuch as AtIREG1,AtFRD3 and NRAMP1 are *** addition,the expression of several putative peptidetransporters and transcription factors are also altered in the 35S::DwMYB2 transgenic *** data provide us insightinto the whole plant translocation of iron and identify candidate genes for iron homeostasis in plants despite the fact thata heterologous gene was expressed.

关键词： DwMYB2 iron uptake and homeostasis iron transporters Arabidopsis

LEAFY HEAD2,which encodes a putative RNA-binding protein,regulates shoot development of rice

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Cell Research 2006年第3期16卷 267-276页

作者： Guo Sheng Xiong~(1,3) Xing Ming Hu~2 Yong Qing Jiao~1 Yan Chun Yu~1 Cheng Cai Chu~1 Jia Yang Li~1 Qian Qian~2 Yong Hong Wang~11 state key laboratory of Plant Genomics and National Center for Plant Gene Research,institute of genetics and Developmental biology,chinese academy of sciences,beijing 100101,china 2 state key laboratory of Rice biology,china National Rice Research institute,chinese academy of Agricultural sciences,Hangzhou 310006,china 3 Graduate University of chinese academy of sciences,beijing 100049,china state key laboratory of Plant Genomics and National Center for Plant Gene Research Institute of Genetics and Developmental Biology Chinese Academy of Sciences Beijing China Graduate University of chinese academy of sciences Beijing China state key laboratory of Rice biology China National Rice Research Institute Chinese Academy of Agricultural Sciences Hangzhou China

During vegetative development,higher plants continuously form new leaves in regular spatial and temporal *** with abnormal leaf developmental patterns not only provide a great insight into understanding the regulatorymechanism of plant architecture,but also enrich the ways to its modification by which crop yield could be ***,we reported the characterization of the rice leafy-head2 (lhd2) mutant that exhibits shortened plastochron,dwarfism,reduced tiller number,and failure of phase transition from vegetative to reproductive *** and histologicalstudy revealed that the rapid emergence of leaves in lhd2 was resulted from the rapid initiation ofleafprimordia whereasthe reduced tiller number was a consequence of the suppression of the tiller bud *** molecular and geneticanalysis showed that LHD2 encodes a putative RNA binding protein with 67% similarity to maize *** ofgenome-scale expression profiles between wild-type and lhd2 plants suggested that LHD2 may regulate rice shoot devel-opment through KNOXand hormone-related *** similar phenotypes caused by LHD2 mutation and the conservedexpression pattern of LHD2 indicated a conserved mechanism in controlling the temporal leaf initiation in grass.

关键词： phyllotaxy plastochron LHD2 RNA-binding protein stem elongation plant architecture Oryza sativa L

Chromosome analysis of esophageal squamous cell carcinoma cell line KYSE 410-4 by repetitive multicolor fluorescence in situ hybridization

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Journal of genetics and Genomics 2008年第1期35卷 11-16页

作者： Yiling Yang a, b, Jiayou Chu a, Yupeng Wu b, Manli Luo b, Xin Xu b, Yaling Han b, Yan Cai b, Qimin Zhanb, Mingrong Wang b, a Department of genetics, institute of medical biology, Peking Union medical College and chinese academy of medical sciences, Kunming 650118, china b state key laboratory of molecular Oncology, Cancer institute (Hospital), Peking Union medical College and chinese academy of medical sciences, beijing 100021, china Department of genetics Institute of Medical Biology Peking Union Medical College and Chinese Academy of Medical Sciences Kunming 650118 China state key laboratory of molecular Oncology Cancer Institute (Hospital) Peking Union Medical College and Chinese Academy of Medical Sciences Beijing 100021 China

Chromosome aberrations are distinctive features of human malignant tumors. Analysis of chromosomal changes can illuminate the molecular mechanisms underlying the development and progression of cancer. To establish the technique of multicolor fluorescence in situ hybridization (M-FISH) for identifying chromosome aberrations in esophageal carcinoma cell line KYSE 410-4, four pools of 6-color whole-chromosome painting probes have been designed and hybridized on the same metaphase spread by four rounds of repetitive FISH. Repetitive 6-color M-FISH was successfully established and the cytogenetic abnormalities in KYSE 410-4 cells were characterized. Chromosome gains occurred at 2q, 3, 8, 17p, and X. An isochromosome 3q was visualized in the cell line, which might be one intermedi- ate mechanism leading to 3p losses and/or 3q gains. Furthermore, 16 structural arrangements were detected, including four derivative chromosomes. The rearrangement of the centromeric regions accounted for approximately 44% of all rearrangements. The results added a more complete and accurate information of the genetic alterations to the classical cytogenetic description of KYSE 410-4 and provided a detailed cytogenetic background data for appropriate use of the cell line. The established 6-color M-FISH was useful for analyzing chro- mosomes in the whole genome of human tumors.

关键词： multicolor fluorescence in situ hybridization KYSE 410-4 karyotype esophageal squamous cell carcinoma

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 institute of Neuroscience State Key Laboratory of Neuroscience Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai China state key laboratory of Brain and Cognitive Science Institute of Biophysics Chinese Academy of Sciences Beijing 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 and Evolution Kunming Institute of Zoology Chinese Academy of Sciences Kunming China Graduate University of the chinese academy of sciences Beijing China molecular and Cell biology University of Science and Technology of China Hefei China laboratory for Conservation and Utilization of Bio-resources Yunnan University Kunming 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