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Characterization of serogroup C meningococci isolated from 14 provinces of china during 1966—2005 using comparative genomic hybridization

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Science china(Life Sciences) 2007年第1期50卷 1-6页

作者： PENG JunPing1, ZHANG XiaoBing1, YANG E1, WANG Jing1, YANG Jian1, SHAO ZhuJun2, 3 & JIN Qi1 1 state key laboratory for Molecular Virology and Genetic Engineering, beijing 100052, china 2 National Institute for Communicable disease control and prevention, beijing 102206, china 3 state key laboratory for infectious disease prevention and control, beijing 102206, china 1. state key laboratory for Molecular Virology and Genetic Engineering Beijing 100052 China 2. National Institute for Communicable disease control and prevention Beijing 102206 China 3. state key laboratory for infectious disease prevention and control Beijing 102206 China

Neisseria meningitidis is a major cause of bacterial meningitis and septicemia worldwide. In china, serogroup A strains were responsible for over 95% of the cases, while serogroup B strains were mainly the cause of localized outbreaks and sporadic cases. Before 2003, serogroup C strains were only re-covered from a few sporadic cases. However, a sudden increase in the number of cases due to sero-group C strains occurred during 2003—2005 in Anhui Province, china. Many cases were found in other provinces at the same time. Multilocus sequence typing (MLST) results indicated that the unique se-quence type 4821 clone meningococci, a new hyper-virulent lineage, was responsible for the serogroup C meningitis outbreaks. We have completed the project of sequencing the whole genome of the Chi-nese N. meningitidis serogroup C representative isolate 053442. We fabricated a whole-genome mi-croarray of N. meningitidis isolate 053442 and analyzed the genome composition differences among 81 serogroup C isolates which were isolated from 14 provinces of china during 1966—2005. The com-parative genomic hybridization (CGH) result shows that the genome compositions of nearly all sero-group C isolates are similar to that of 053442. The products of many absent open reading frames (ORFs) are conserved hypothetical proteins. The results will provide a valuable resource from which one can analyze the genome composition and genetic background of serogroup C meningococci in china.

关键词： Neisseria meningitidis comparative genomic hybridization ST-4821

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Identification and functional analysis of a CDE/CHR element in the POLD1 promoter

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Science china(Life Sciences) 2009年第6期52卷 551-559页

作者： SONG NanMeng1,ZHU XiaoYu1,2,SHI Lei1,AN Jing1,WU YanWei1 & SANG JianLi1 1 key laboratory of Cell Proliferation and Regulation of Ministry of Education,beijing Normal University,beijing 100875,china 2 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 1. key laboratory of Cell Proliferation and Regulation of Ministry of Education Beijing Normal University Beijing 100875 China 2. 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

DNA polymerase delta is encoded by the POLD1 gene,the transcription of which is strictly cell ***,the means by which POLD1 transcription is regulated by the cell cycle mechanism is currently *** discovered a novel element in the POLD1 promoter known as a CDE(cell cycle-dependent element)/CHR(cell cycle gene homology region) element.A series of luciferase reporter constructs containing various POLD1 promoter mutations were used to investigate the role of the CDE/CHR element in POLD1 *** the CDE/CHR element was mutated,the promoter activity was up-regulated,and the cell-cycle related factors E2F1 and p21 stopped regulating the ***,cell cycle-dependent changes in the promoter activity required the integrative CDE/CHR *** mobility shift assay(EMSA) revealed the presence of at least three types of DNA/protein complexes binding to the CDE/CHR *** findings provide strong evidence that the CDE/CHR-like sequence is an active functional element in the POLD1 promoter,which is important for the cell cycle regulation of the POLD1 gene.

关键词： POLD1 gene promoter CDE/CHR element site mutant

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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

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A Flavobacterium lindanitolerans Strain Isolated from the Ascites Sample of a Chinese Patient with EV71 Virus Infection

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Biomedical and Environmental Sciences 2011年第6期24卷 694-696页

作者： TIAN Guo Zhong1,△,PIAO Dong Ri1,△,ZHAO Hong Yan1,△,JIANG Hai1,CUI Bu Yun1,and LI Jun Yan2,#1.state key laboratory for infectious diseases prevention and control,National Institute for Communicable disease control and prevention,Chinese Center for disease control and prevention,beijing 102206,china 2.National Institute of Occupational Health and Poison control,Chinese Center for disease control and prevention,beijing 100050,china [a] state key laboratory for infectious diseases prevention and control National Institute for Communicable Disease Control and Prevention Chinese Center for Disease Control and Prevention Beijing 102206 China [b] National Institute of Occupational Health and Poison control Chinese Center for Disease Control and Prevention Beijing 100050 China

A strain of Flavobacterium lindanitolerans isolated from a sick child`s ascites was *** 16S rRNA gene of the strain was 100% identical to that of Flavobacterium lindanitolerans which was first identified in India in *** was first described that the isolate required X factor (Hemin) for growth in the optimal conditions of 37°C with 5% *** isolate produced indole and *** did not present hemolytic feature on blood agar.

关键词： Flavobacterium lindanitolerans 16S rRNA Biology

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Secreted Protein HP1286 of Helicobacter pylori Strain 26695 Induces Apoptosis of AGS Cells

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Biomedical and Environmental Sciences 2012年第6期25卷 614-619页

作者： LI Jing 1,2, , MENG Fan Liang 1,2, , HE Li Hua 1,2 , and ZHANG Jian Zhong 1,2, 1. National Institute for Communicable disease control and prevention, Chinese Center for disease control and prevention, beijing 102206, china 2. state key laboratory for infectious disease prevention and control, Chinese Center for disease control and prevention, beijing 102206, china [a] National Institute for Communicable disease control and prevention Chinese Center for Disease Control and Prevention Beijing 102206 China [b] state key laboratory for infectious disease prevention and control Chinese Center for Disease Control and Prevention Beijing 102206 China

Objective Secreted proteins of Helicobacter pylori （H. pylori） interact with gastric epithelium cells and may contribute to cell damage. Considering the fact that HPO17S and hypothetical conserved protein HP1286 are included in the group and that HP0175 is a well-known apoptosis-induced factor, the present study aims to clarify whether HP1286 plays a role in bacterial pathogenicity or even functions as an apoptosis-induced factor in human stomach. Methods Two genes encoding HP1286 and HPO175 were cloned into pET32a vector and expressed as recombinant proteins in Escherichia coil （E. coil） BL21. Signal peptide sequences were not included. The recombinant proteins were purified with His SpinTrap and desalted by using HiTrap Desalting. Immunoreactivity of the proteins was determined by Western blot. Human gastric epithelial cell AGS was challenged with these endotoxin-free proteins; and apoptosis of cells was assayed with the Cell Death ELISA kit. Results Recombinant proteins and their respective products whose N-terminal his-tag were removed with thrombin were recognized by serum from the patient infected with H. pylori. Apoptotic AGS cells challenged by HP1286 of H. pylori 26695 were four times more than untreated cells. In addition, apoptosis-induced ability of HP1286 of SS1 was not as strong as that of H. pylori 26695 strain. Conclusion HP1286 of H. pylori 26695 induces apoptosis of AGS cells in a time-dependent manner, however the apoptosis-induced ability of HP1286 may differ due to variations between different strains.

关键词： H. pylori HP1286 AGS Apoptosis

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An integrated view of the correlations between genomic and phenomic variables

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Journal of Genetics and Genomics 2009年第11期36卷 645-651页

作者： Dong Yang,Ying Jiang,Fuchu He state key laboratory of Proteomics,beijing Proteome Research Center,beijing Institute of Radiation Medicine,beijing 102206,china [a]state key laboratory of Proteomics Beijing Proteome Research Center Beijing Institute of Radiation Medicine Beijing 102206 China

Genome sequencing opened the flood gate of ＂-omics＂ studies, among which the research about correlations between genomic and phenomic variables is an important part. With the development of functional genomics and systems biology, genome-wide investigation of the correlations between many genomic and phenomic variables became possible. In this review, five genomic variables, such as evolution rate （or ＂age＂ of the gene）, the length of intron and ORF （protein length） in one gene, the biases of amino acid composition and codon usage, along with the phenomic variables related to expression patterns （level and breadth） are focused on. In most cases, genes with higher mRNA/protein expression level tend to evolve slowly, have less intronic DNA, code for smaller proteins, and have higher biases of amino acid composition and codon usage. In addition, broadly expressed proteins evolve more slowly and are shorter than tissue-specific proteins. Studies in this field are helpful for deeper understanding the signatures of selection mediated by the features of gene expression and are of great significance to enrich the evolution theory.

关键词： genomic variable phenomic variable expression pattern evolution selection

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Human avian influenza A (H5N1) virus infection in china

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Science china(Life Sciences) 2009年第5期52卷 407-411页

作者： XU CuiLin, DONG LiBo, XIN Li, LAN Yu, CHEN YongKun, YANG LiMei & SHU YueLong state key laboratory for Viral Genetic and Engineering, National Institute for Viral disease control and prevention, Chinese Center for disease control and prevention (china CDC), beijing 100052, china 1. state key laboratory for Viral Genetic and Engineering National Institute for Viral Disease Control and Prevention Chinese Center for Disease Control and Prevention (China CDC) Beijing 100052 China

Highly pathogenic influenza A (H5N1) virus causes a widespread poultry deaths worldwide. The first human H5N1 infected case was reported in Hong Kong Special Administrative Region of china in 1997. Since then, the virus re-emerged in 2003 and continues to infect people worldwide. Currently, over 400 human infections have been reported in more than 15 countries and mortality rate is greater than 60%. H5N1 viruses still pose a potential pandemic threat in the future because of the continuing global spread and evolution. Here, we summarize the epidemiological, clinical and virological characteristics of human H5N1 infection in china monitored and identified by our national surveillance systems.

关键词： avian influenza H5N1 virus human infection china

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Spatial prediction and analysis of Himalayan marmot plague natural epidemic foci in china based on HJ-1 satellite data

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Science china Earth Sciences 2010年第S1期53卷 8-15页

作者： GAO MengXu1,4,LI XiaoWen1,2,CAO ChunXiang1,ZHANG Hao1,LI Qun3,ZHOU Hang3 HE QiSheng1,4,XU Min1,4,ZHAO Jian1,4,ZHENG Sheng1,4 & CHEN Wei1,4 1state key laboratory of Remote Sensing Science,Jointly Sponsored by the Institute of Remote Sensing Applications of Chinese Academy of Sciences and beijing Normal University,beijing 100101,china 2School of Geography,beijing Normal University,beijing 100875,china 3Office for disease control and Emergency Response,Chinese Center for disease control and prevention,beijing 102206,china 4Graduate University of Chinese Academy of Sciences,beijing 100049,china 1. state key laboratory of Remote Sensing Science Jointly Sponsored by the Institute of Remote Sensing Applications of Chinese Academy of Sciences and Beijing Normal University Beijing 100101 China4. Graduate University of Chinese Academy of Sciences Beijing 100049 China2. School of Geography Beijing Normal University Beijing 100875 China3. Office for Disease Control and Emergency Response Chinese Center for Disease Control and Prevention Beijing 102206 China

Plague,caused by the gram-negative bacterium Yersinia pestis,is a serious and rapidly progressing illness in humans that can be fatal if not treated *** Qinghai-Tibet Plateau is the largest area of natural Himalayan marmot(Marmota himalayana) plague foci in china and covers more than 630000 *** County in Gansu Province is a part of this natural focus of plague and was chosen as a study *** study used an ecological niche modeling(ENM) approach to predict the potential distribution of the Himalayan *** and Disaster Monitor Satellite(HJ-1) data was used to investigate environment factors that affect plague host animal *** animal point data from active surveillance was combined with environmental variables from the HJ-1 satellite and other databases,and the models of the potential distribution of Himalayan marmot were produced with the Genetic Algorithm for Rule-Set Production(GARP).The probability of marmot presence was divided into 0-5%,5%-20%,20%-40%,40%-80%,and 80%-100% *** with 80%-100% probability exhibited the greatest potential for the presence of Himalayan *** to the predicted potential distribution of Himalayan marmot in the study area,active surveillance of plague hosts and plague control and prevention could be more efficient.

关键词： Himalayan marmot plague spatial prediction GARP HJ-1 satellite

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Meta-analysis of the relationship between Epstein-Barr virus infection and clinicopathological features of patients with gastric carcinoma

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Science china(Life Sciences) 2010年第4期53卷 524-530页

作者： LI ShuYing1,2, DU HaiJun3, WANG Zhan3, ZHOU Ling3, ZHAO XiaoYu1 & ZENG Yi3 1 College of Life Sciences, Hebei University, Baoding 071002, china 2 Department of Pathogenic Biology, Faculty of Biological Science, North china Coal Medical College, Tangshan 063000, china 3 National Institute for Viral disease control and prevention, Chinese Center for disease control and prevention (Chinese CDC), state key laboratory for infectious disease prevention and control (SKLID), beijing 100052, china 1. College of Life Sciences Hebei University Baoding 071002 China2. Department of Pathogenic Biology Faculty of Biological Science North China Coal Medical College Tangshan 063000 China3. National Institute for Viral Disease Control and Prevention Chinese Center for Disease Control and Prevention (Chinese CDC) State Key Laboratory for Infectious Disease Prevention and Control (SKLID) Beijing 100052 China

Epstein-Barr virus (EBV) infection has been causally associated with occurrence of many malignant neoplasms. EBV-encoded small RNAs (EBERs) have been detected from about 10% of gastric carcinoma tissue cells, suggesting that EBV infection is associated with the development of gastric carcinoma. The present study pooled the data from the papers concerning EBV-related gastric cancers and performed a meta-analysis of 22 research papers. Among these papers, a total of 5475 cases with gastric cancer were enrolled, of whom 411 cases were found EBV-positive, with the EBV-positive rate being 7.5%. Among the EBV-positive gastric cancer cases, the detection rate was 11.1% in males and 3.0% in females. Compared with EBV-negative gastric cancer, EBV-positive gastric cancer had less lymph node metastasis. Based on the histological typing, of the EBV-positive gastric cancers, the diffuse type was 8.1%, and intestinal type was 8.0%. The examined specimen types included stored paraffin blocks and fresh surgically removed specimens, their EBV positive rates were 7.9% and 6.5% respectively. In terms of geographical distribution, the detection rate of EBV-positive gastric cancer was 9.4% in America, 6.1% in Asia and 9.1% in Europe. Meta-analysis showed that EBV infection occurred only in gastric cancer tissue cells and was significantly associated with the patients’ gender, lymph node metastases, and the location where tumor tissue generated and geographical distribution (P0.05). These results suggested that EBV-positive gastric cancer has distinct clinicopathological features.

关键词： Epstein-Barr virus gastric carcinoma meta-analysis in situ hybridization

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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

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