Ruifu Yang

Summary

Publications

  1. pmc Two-step source tracing strategy of Yersinia pestis and its historical epidemiology in a specific region
    Yanfeng Yan
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China BGI Shenzhen, Shenzhen, China
    PLoS ONE 9:e85374. 2014
  2. pmc Ambient stable quantitative PCR reagents for the detection of Yersinia pestis
    Shi Qu
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China
    PLoS Negl Trop Dis 4:e629. 2010
  3. pmc Insight into microevolution of Yersinia pestis by clustered regularly interspaced short palindromic repeats
    Yujun Cui
    State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing, China
    PLoS ONE 3:e2652. 2008
  4. pmc Different region analysis for genotyping Yersinia pestis isolates from China
    Yanjun Li
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing, China
    PLoS ONE 3:e2166. 2008
  5. pmc Involvement of the post-transcriptional regulator Hfq in Yersinia pestis virulence
    Jing Geng
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China
    PLoS ONE 4:e6213. 2009
  6. pmc Genomic evolution of 11 type strains within family Planctomycetaceae
    Min Guo
    Shenzhen Key Laboratory of Environmental Microbial Genomics and Application, BGI Shenzhen, Shenzhen, China Shenzhen Key Laboratory of Bioenergy, BGI Shenzhen, Shenzhen, China BGI Shenzhen, Shenzhen, China
    PLoS ONE 9:e86752. 2014
  7. pmc A multi-omic analysis of an Enterococcus faecium mutant reveals specific genetic mutations and dramatic changes in mRNA and protein expression
    De Chang
    Nanlou Respiratory Diseases Department, Chinese PLA General Hospital, Beijing 100853, China
    BMC Microbiol 13:304. 2013
  8. pmc Omics strategies for revealing Yersinia pestis virulence
    Ruifu Yang
    Beijing Institute of Microbiology and Epidemiology Beijing, China
    Front Cell Infect Microbiol 2:157. 2012
  9. pmc Humoral and cellular immune responses to Yersinia pestis infection in long-term recovered plague patients
    Bei Li
    Institute of Biomedicine, Taihe Hospital, Hubei University of Medicine, Shiyan, Hubei Province, China
    Clin Vaccine Immunol 19:228-34. 2012
  10. pmc Universal sample preparation method for characterization of bacteria by matrix-assisted laser desorption ionization-time of flight mass spectrometry
    Haihong Liu
    No 20, Dongdajie, Fengtai, Beijing 100071, China
    Appl Environ Microbiol 73:1899-907. 2007

Collaborators

  • Yanping Han
  • D Zhou
  • Jin Wang
  • Yujun Cui
  • Lei Zhou
  • Li Wang
  • He Gao
  • Xin Pang
  • Huiying Yang
  • Min Li
  • Zhaobiao Guo
  • Xiaoyi Wang
  • Yajun Song
  • Zongmin Du
  • Yafang Tan
  • Yiquan Zhang
  • Bei Li
  • Yanfeng Yan
  • Yujing Bi
  • Zuyun Wang
  • Zhizhen Qi
  • Jingfu Qiu
  • Hu Wang
  • Junhui Zhai
  • Zeliang Chen
  • Baizhong Cui
  • Erhei Dai
  • Lei Yang
  • Yefeng Qiu
  • Lingjun Zhan
  • De Chang
  • Yingli Li
  • Haihong Liu
  • Yanjun Li
  • Qingwen Zhang
  • Haihong Han
  • Ziwen Zhu
  • Longxiang Su
  • Chengxiang Fang
  • Xiangna Zhao
  • Fengjun Sun
  • Long Qin
  • Xiao Xiao
  • Xiumei Liu
  • Chuan Qin
  • Zongzhong Tong
  • Maofeng Qiu
  • Xuecan Zhang
  • Zhenhong Chen
  • Changting Liu
  • Yinghua Guo
  • Ruixia Dai
  • Yuanfang Zhu
  • Xiangqun Fang
  • Shi Qu
  • Xiaotao Zeng
  • Yongqiang Jiang
  • Hongxia Wang
  • Jun Yu
  • Jiaqi Tang
  • Yonghai Yang
  • Hin Chung Wong
  • Decui Pei
  • Zhizhong Song
  • Yufei Wang
  • Jing Geng
  • Lianfeng Zhang
  • Tang Wang
  • Gilles Vergnaud
  • Min Guo
  • Dongfang Li
  • Pingping Zhang
  • Jianguo Zhang
  • Nan Fang
  • Tianzhi Li
  • Youquan Xin
  • Peiyuan Xia
  • Yuanqiang Zou
  • Yi Qu
  • Guang Tian
  • Zuowei Wu
  • Haoran Wang
  • Wenyan Hong
  • Jin Zhao
  • Liuyu Huang
  • Qing Qu
  • Zhijun Zhong
  • George F Gao
  • Changjun Wang
  • Xinying Du

Detail Information

Publications94

  1. pmc Two-step source tracing strategy of Yersinia pestis and its historical epidemiology in a specific region
    Yanfeng Yan
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China BGI Shenzhen, Shenzhen, China
    PLoS ONE 9:e85374. 2014
    ....
  2. pmc Ambient stable quantitative PCR reagents for the detection of Yersinia pestis
    Shi Qu
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China
    PLoS Negl Trop Dis 4:e629. 2010
    ..In this work, a set of real-time PCR reagents for rapid detection of Y. pestis was developed with extraordinary stability at 37 degrees C...
  3. pmc Insight into microevolution of Yersinia pestis by clustered regularly interspaced short palindromic repeats
    Yujun Cui
    State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing, China
    PLoS ONE 3:e2652. 2008
    ..pestis from 26 natural plague foci of China, the former Soviet Union and Mongolia were analyzed, for validating CRISPR-based genotyping method and better understanding adaptive microevolution of Y. pestis...
  4. pmc Different region analysis for genotyping Yersinia pestis isolates from China
    Yanjun Li
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing, China
    PLoS ONE 3:e2166. 2008
    ..pestis strains for validating DFR-based genotyping method and better understanding adaptive microevolution of Y. pestis...
  5. pmc Involvement of the post-transcriptional regulator Hfq in Yersinia pestis virulence
    Jing Geng
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China
    PLoS ONE 4:e6213. 2009
    ..Sequence comparisons revealed that Y. pestis appears to produce a functional homologue of E. coli Hfq...
  6. pmc Genomic evolution of 11 type strains within family Planctomycetaceae
    Min Guo
    Shenzhen Key Laboratory of Environmental Microbial Genomics and Application, BGI Shenzhen, Shenzhen, China Shenzhen Key Laboratory of Bioenergy, BGI Shenzhen, Shenzhen, China BGI Shenzhen, Shenzhen, China
    PLoS ONE 9:e86752. 2014
    ..The results indicate that Planctomycetaceae species share diverse genomic variations and unique genomic characteristics, as well as have huge potential for human applications. ..
  7. pmc A multi-omic analysis of an Enterococcus faecium mutant reveals specific genetic mutations and dramatic changes in mRNA and protein expression
    De Chang
    Nanlou Respiratory Diseases Department, Chinese PLA General Hospital, Beijing 100853, China
    BMC Microbiol 13:304. 2013
    ..E. faecium could be taken into space with astronauts and exposed to the space environment. Thus, it is necessary to observe the phenotypic and molecular changes of E. faecium after spaceflight...
  8. pmc Omics strategies for revealing Yersinia pestis virulence
    Ruifu Yang
    Beijing Institute of Microbiology and Epidemiology Beijing, China
    Front Cell Infect Microbiol 2:157. 2012
    ..These studies serve as foundations for further hypothesis-driven research and help us gain insight into Y. pestis pathogenesis...
  9. pmc Humoral and cellular immune responses to Yersinia pestis infection in long-term recovered plague patients
    Bei Li
    Institute of Biomedicine, Taihe Hospital, Hubei University of Medicine, Shiyan, Hubei Province, China
    Clin Vaccine Immunol 19:228-34. 2012
    ..Our findings have direct implications for the future design and development of effective vaccines against Y. pestis infection and the development of new target-based diagnostics...
  10. pmc Universal sample preparation method for characterization of bacteria by matrix-assisted laser desorption ionization-time of flight mass spectrometry
    Haihong Liu
    No 20, Dongdajie, Fengtai, Beijing 100071, China
    Appl Environ Microbiol 73:1899-907. 2007
    ..This protocol is simple, rapid, and easy to perform; has excellent reproducibility; and is suitable for the construction of a mass spectrum fingerprinting database, which helps in fast bacterial identification via database searching...
  11. doi request reprint Genomic research for important pathogenic bacteria in China
    Ruifu Yang
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, 100071, China
    Sci China C Life Sci 52:50-63. 2009
    ....
  12. ncbi request reprint Pseudogene accumulation might promote the adaptive microevolution of Yersinia pestis
    Zongzhong Tong
    Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, No 20 Dongdajie, Fengtai, Beijing 100071, China
    J Med Microbiol 54:259-68. 2005
    ..pestis in China except for isolates from foci L and M, which might be a special lineage of Y. pestis and originated differently to the others...
  13. pmc Characterization of Zur-dependent genes and direct Zur targets in Yersinia pestis
    Yingli Li
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, PR China
    BMC Microbiol 9:128. 2009
    ..The zinc uptake regulator Zur is a Zn2+-sensing metalloregulatory protein involved in the maintenance of bacterial zinc homeostasis. Up to now, regulation of zinc homeostasis by Zur is poorly understood in Y. pestis...
  14. ncbi request reprint Genome-wide transcriptional response of Yersinia pestis to stressful conditions simulating phagolysosomal environments
    Dongsheng Zhou
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, National Center for Biomedical Analysis, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Fengtai, Beijing 100071, China
    Microbes Infect 8:2669-78. 2006
    ..This microarray analysis would provide the candidates for identifying genes or pathways required for growth and proliferation of Y. pestis in macrophages...
  15. ncbi request reprint Genomic comparison of Yersinia pestis and Yersinia pseudotuberculosis by combination of suppression subtractive hybridization and DNA microarray
    Xiaoyi Wang
    State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing 100071, China
    Arch Microbiol 186:151-9. 2006
    ..The results confirmed our earlier hypothesis that Y. pestis Antiqua isolates from the natural plague focus B in China represented the most ancestral strains in China, hence phylogenetically the closest isolates to Y. pseudotuberculosis...
  16. ncbi request reprint Comparative transcriptome analysis of Yersinia pestis in response to hyperosmotic and high-salinity stress
    Yanping Han
    Laboratory of Analytical Microbiology, National Center for Biomedical Analysis, Army Center for Microbial Detection and Research, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences AMMS, Beijing 100071, China
    Res Microbiol 156:403-15. 2005
    ..pestis still executed common mechanisms to accommodate both types of stress...
  17. ncbi request reprint Identification of different regions among strains of Yersinia pestis by suppression subtractive hybridization
    Erhei Dai
    Laboratory of Analytical Microbiology, Institute of Microbiology and Epidemiology, National Center for Biomedical Analysis, Academy of Military Medical Sciences AMMS, Beijing 100071, China
    Res Microbiol 156:785-9. 2005
    ..pseudotuberculosis (serotypes I and II), showing that not all Antiqua strains had DFR4. Five DFR profiles were identified based on the presence or absence of these four DFRs in 636 strains of Y. pestis from 10 plague foci in China...
  18. pmc Long-term observation of subunit vaccine F1-rV270 against Yersinia pestis in mice
    Zuyun Wang
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, China
    Clin Vaccine Immunol 17:199-201. 2010
    ..Antibodies to F1 and rV270 were still detectable over a period of 518 days. The complete protection against lethal challenge of Yersinia pestis could be achieved up to day 518 after primary immunization...
  19. pmc DNA microarray analysis of genome dynamics in Yersinia pestis: insights into bacterial genome microevolution and niche adaptation
    Dongsheng Zhou
    Laboratory of Analytical Microbiology, National Centre for Biomedical Analysis, Army Center for Microbial Detection and Research, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing 100071, China
    J Bacteriol 186:5138-46. 2004
    ..Our data strongly support that the modern plague originated from Yunnan Province in China, due to the arising of biovar orientalis from biovar antiqua rather than mediaevalis...
  20. pmc Genotyping and phylogenetic analysis of Yersinia pestis by MLVA: insights into the worldwide expansion of Central Asia plague foci
    Yanjun Li
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing, China
    PLoS ONE 4:e6000. 2009
    ....
  21. ncbi request reprint Identification of signature genes for rapid and specific characterization of Yersinia pestis
    Dongsheng Zhou
    National Center for Biomedical Analysis, Army Center for Microbial Detection and Research, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Bejing, China
    Microbiol Immunol 48:263-9. 2004
    ..pseudotuberculosis or a large collection of genomic DNAs from other organisms...
  22. ncbi request reprint Defining the genome content of live plague vaccines by use of whole-genome DNA microarray
    Dongsheng Zhou
    Laboratory of Analytical Microbiology, National Center for Biomedical Analysis, Army Center for Microbial Detection and Research, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences AMMS, Beijing 100071, PR China
    Vaccine 22:3367-74. 2004
    ..The whole-genome DNA microarray also provides an ideal tool to perform the pre-evaluation of a vaccine strain for its high throughput to determine the genomic features essential or unallowable for the live vaccines...
  23. doi request reprint Physiological and regulatory characterization of KatA and KatY in Yersinia pestis
    Yanping Han
    State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing, China
    DNA Cell Biol 27:453-62. 2008
    ..pestis compared with that in vitro growth. However, a DeltakatY mutant was fully virulent to mice, suggesting that KatY is not required for Y. pestis virulence...
  24. pmc Autoregulation of PhoP/PhoQ and positive regulation of the cyclic AMP receptor protein-cyclic AMP complex by PhoP in Yersinia pestis
    Yiquan Zhang
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China
    J Bacteriol 195:1022-30. 2013
    ..The CRP and PhoP regulons have evolved to merge into a single regulatory cascade in Y. pestis because of the direct regulatory association between PhoP/PhoQ and CRP-cAMP...
  25. doi request reprint The low-salt stimulon in Vibrio parahaemolyticus
    Lei Yang
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, China
    Int J Food Microbiol 137:49-54. 2010
    ..The above differentially regulated genes will provide novel candidates for the further investigation of the molecular mechanisms of osmoadaptation in V. parahaemolyticus...
  26. ncbi request reprint Microarray expression profiling of Yersinia pestis in response to chloramphenicol
    Jingfu Qiu
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, National Center for Biomedical Analysis, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing, China
    FEMS Microbiol Lett 263:26-31. 2006
    ..A number of heat-shock genes were also repressed. These global transcriptional changes provide an insight into the mechanisms of action of chloramphenicol against Y. pestis...
  27. ncbi request reprint Transcriptome analysis of the Mg2+-responsive PhoP regulator in Yersinia pestis
    Dongsheng Zhou
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, National Center for Biomedical Analysis, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing 100071, China
    FEMS Microbiol Lett 250:85-95. 2005
    ..pestis survives the antibacterial strategies employed by host macrophages...
  28. ncbi request reprint Quorum sensing affects virulence-associated proteins F1, LcrV, KatY and pH6 etc. of Yersinia pestis as revealed by protein microarray-based antibody profiling
    Zeliang Chen
    State Key Laboratory of Pathogen and Biosecurity, Laboratory of Analytical Microbiology, National Center for Biomedical Analysis, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences AMMS, Beijing 100071, China
    Microbes Infect 8:2501-8. 2006
    ..The results demonstrated that antibody profiling by protein microarrays is a promising high-throughput method for revealing the interactions between pathogens and the host immune system...
  29. ncbi request reprint Global gene expression profile of Yersinia pestis induced by streptomycin
    Jingfu Qiu
    Laboratory of Analytical Microbiology, National Center for Biomedical Analysis, Army Center for Microbial Detection and Research, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences AMMS, Beijing 100071, China
    FEMS Microbiol Lett 243:489-96. 2005
    ....
  30. pmc Identification and characterization of PhoP regulon members in Yersinia pestis biovar Microtus
    Yingli Li
    State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing 100071, China
    BMC Genomics 9:143. 2008
    ..Our previous microarray analysis suggested that PhoP governed a wide set of cellular pathways in Y. pestis. A series of biochemical experiments were done herein to study members of the PhoP regulon of Y. pestis biovar Microtus...
  31. ncbi request reprint Transcriptional profiling of a mice plague model: insights into interaction between Yersinia pestis and its host
    Haihong Liu
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing, China
    J Basic Microbiol 49:92-9. 2009
    ..pestis and expression alterations of some genes encoding cytokines in the host reflect the interaction between the pathogen and the host, which will help us better understand plague pathogenesis...
  32. doi request reprint A novel genotyping scheme for Vibrio parahaemolyticus with combined use of large variably-presented gene clusters (LVPCs) and variable-number tandem repeats (VNTRs)
    Xiao Xiao
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, China
    Int J Food Microbiol 149:143-51. 2011
    ..A genetic fingerprint-like database of a large collection of strains established with this two-stage approach would be very useful for identification, genotyping, origin tracing, and risk estimation of V. parahaemolyticus...
  33. ncbi request reprint Global analysis of iron assimilation and fur regulation in Yersinia pestis
    Dongsheng Zhou
    State Key Laboratory of Pathogen and Biosecurity, Army Center for Microbial Detection and Research, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing, China
    FEMS Microbiol Lett 258:9-17. 2006
    ..Using bioinformatics tools, we were able to predict the Y. pestis Fur box sequence that was clearly the over-presented motif in the promoter regions of members of the iron-Fur modulon...
  34. ncbi request reprint Yersinia genome diversity disclosed by Yersinia pestis genome-wide DNA microarray
    Xiaoyi Wang
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing 100071, China
    Can J Microbiol 53:1211-21. 2007
    ..pseudotuberculosis, indicating that its different serotypes have undergone an extensively parallel loss or acquisition of genetic content, which is likely to be important for its adaptation to changes in environmental niches...
  35. pmc Genetics of metabolic variations between Yersinia pestis biovars and the proposal of a new biovar, microtus
    Dongsheng Zhou
    Laboratory of Analytical Microbiology, National Center for Biomedical Analysis, Army Center for Microbial Detection and Research, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing 100071, China
    J Bacteriol 186:5147-52. 2004
    ..pestis and plague pathogenesis. Moreover, there may be the implications for development of biovar microtus strains as a potential vaccine...
  36. doi request reprint A live attenuated strain of Yersinia pestis ΔyscB provides protection against bubonic and pneumonic plagues in mouse model
    Xuecan Zhang
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, China
    Vaccine 31:2539-42. 2013
    ..pestis challenge...
  37. pmc Outer membrane proteins ail and OmpF of Yersinia pestis are involved in the adsorption of T7-related bacteriophage Yep-phi
    Xiangna Zhao
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China
    J Virol 87:12260-9. 2013
    ..The observations highlight the importance of the tail fiber protein in the evolution and function of various complex phage systems and provide insights into phage-bacterium interactions. ..
  38. pmc Molecular characterization of transcriptional regulation of rovA by PhoP and RovA in Yersinia pestis
    Yiquan Zhang
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, People s Republic of China
    PLoS ONE 6:e25484. 2011
    ..pestis through the regulation of various virulence-associated loci. They are the global regulators controlling two distinct large complexes of cellular pathways...
  39. pmc Regulatory effects of cAMP receptor protein (CRP) on porin genes and its own gene in Yersinia pestis
    He Gao
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, PR China
    BMC Microbiol 11:40. 2011
    ..Auto-regulation of CRP has also been established in E. coli. However, the regulation of porin genes and its own gene by CRP remains unclear in Y. pestis...
  40. doi request reprint Gene expression profiling of Yersinia pestis with deletion of lcrG, a known negative regulator for Yop secretion of type III secretion system
    Zongmin Du
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogens and Biosecurity, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing 100071, China
    Int J Med Microbiol 299:355-66. 2009
    ..Furthermore, this report also revealed significant transcriptional changes in the genes encoding cell-envelope-related proteins and a virulence-related transcription factor RovA in the DeltalcrG mutant...
  41. ncbi request reprint Antibody profiling in plague patients by protein microarray
    Bei Li
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, No 20, Dongdajie, Fengtai, Beijing 100071, China
    Microbes Infect 10:45-51. 2008
    ..pestis. Moreover, the lack of antibody to LcrV in the five patients in Focus F might be a challenge to our understanding of the pathogenesis of Y. pestis...
  42. pmc Direct and negative regulation of the sycO-ypkA-ypoJ operon by cyclic AMP receptor protein (CRP) in Yersinia pestis
    Lingjun Zhan
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, PR China
    BMC Microbiol 9:178. 2009
    ..The cyclic AMP receptor protein (CRP), a global regulator, was recently found to regulate the laterally acquired genes (pla and pst) in Y. pestis. The regulation of T3SS components by CRP is unknown...
  43. doi request reprint Reciprocal regulation of pH 6 antigen gene loci by PhoP and RovA in Yersinia pestis biovar Microtus
    Yiquan Zhang
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, China
    Future Microbiol 8:271-80. 2013
    ..To explore the transcriptional regulation of the psaEF and psaABC loci by the RovA and PhoP regulators in Yersinia pestis...
  44. pmc Comparative transcriptomics in Yersinia pestis: a global view of environmental modulation of gene expression
    Yanping Han
    State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, 20, Dongdajie, Fengtai, Beijing 100071, China
    BMC Microbiol 7:96. 2007
    ..Using cDNA microarray technology, we have analyzed the global gene expression of this deadly pathogen when grown under different stress conditions in vitro...
  45. pmc High-throughput identification of new protective antigens from a Yersinia pestis live vaccine by enzyme-linked immunospot assay
    Bei Li
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing 100071, China
    Infect Immun 77:4356-61. 2009
    ..pestis, but only YPO0606 could partially protect mice from infection with Y. pestis at a higher challenge dosage (200x LD(50)). These proteins would be the potential components for Y. pestis vaccine development...
  46. ncbi request reprint [Purification of recombinant H-NS protein of Yersinia pestis and characterization of its DNA-binding activity]
    Yiquan Zhang
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, China
    Wei Sheng Wu Xue Bao 51:615-21. 2011
    ..The regulator protein H-NS of Yersinia pestis was expressed using the Escherichia coli BL21lambdaDE3 protein expression system, and its DNA-binding activity was characterized...
  47. ncbi request reprint DNA microarray analysis of the heat- and cold-shock stimulons in Yersinia pestis
    Yanping Han
    Laboratory of Analytical Microbiology, National Center for Biomedical Analysis, Army Center for Microbial Detection and Research, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences AMMS, Beijing 100071, China
    Microbes Infect 7:335-48. 2005
    ..These results provide a set of new candidate genes for hypothesis-based investigations of their roles in stress response, host adaptation and pathogenicity of this deadly pathogen...
  48. ncbi request reprint Microarray analysis of temperature-induced transcriptome of Yersinia pestis
    Yanping Han
    Laboratory of Analytical Microbiology, National Center for Biomedical Analysis, Army Center for Microbial Detection and Research, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing, China
    Microbiol Immunol 48:791-805. 2004
    ..Our data provided a genome-wide profile of gene transcription induced by temperature shift and should shed light on the pathogenicity and host-microbe interaction of this deadly pathogen...
  49. pmc Insight into bacterial virulence mechanisms against host immune response via the Yersinia pestis-human protein-protein interaction network
    Huiying Yang
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing 100071, China
    Infect Immun 79:4413-24. 2011
    ..In addition, we identified vasodilator-stimulated phosphoprotein (VASP) as a novel interaction partner of YpkA and showed that YpkA could inhibit in vitro actin assembly mediated by VASP...
  50. pmc Phenotypic and transcriptional analysis of the osmotic regulator OmpR in Yersinia pestis
    He Gao
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, PR China
    BMC Microbiol 11:39. 2011
    ..In Yersinia enterocolitica and Y. pseudotuberculosis, OmpR is required for both virulence and survival within macrophages. However, the phenotypic and regulatory roles of OmpR in Y. pestis are not yet fully understood...
  51. pmc Yersinia pestis and host macrophages: immunodeficiency of mouse macrophages induced by YscW
    Yujing Bi
    State Key Laboratory of Pathogen and Biosecurity, National Center for Biomedical Analysis, Army Center for Microbial Detection and Research, Institute of Microbiology and Epidemiology, Beijing, China
    Immunology 128:e406-17. 2009
    ..These data provide evidences to Y. pestis pathogenesis that some proteins in T3SS injectisome, such as YscW protein, might play independent roles in disrupting host defense apart from their known functions...
  52. doi request reprint Extended MLST-based population genetics and phylogeny of Vibrio parahaemolyticus with high levels of recombination
    Yanfeng Yan
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, China
    Int J Food Microbiol 145:106-12. 2011
    ..V. parahaemolyticus had a typical epidemic population structure that is driven by mutation, recombination and lateral gene transfer...
  53. pmc Determination of sRNA expressions by RNA-seq in Yersinia pestis grown in vitro and during infection
    Yanfeng Yan
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China
    PLoS ONE 8:e74495. 2013
    ..Hfq, an RNA-binding protein that many sRNAs act in conjunction with, is required for Y. pestis pathogenesis. However, information on how Yersinia pestis modulates the expression of sRNAs during infection is largely unknown...
  54. pmc Genome sequence of Enterococcus faecium clinical isolate LCT-EF128
    Zhenhong Chen
    Nanlou Respiratory Diseases Department, Chinese PLA General Hospital, Beijing, China
    J Bacteriol 194:4765. 2012
    ..Here, we report the draft genome sequence of strain LCT-EF128, isolated from clinical specimens...
  55. doi request reprint Transcriptional regulation of ompF2, an ompF paralogue, in Yersinia pestis
    He Gao
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, People s Republic of China
    Can J Microbiol 57:468-75. 2011
    ..The ompF2 transcription was dramatically enhanced with increasing medium osmolarity in the ompR null mutant background. The CRP regulator had no regulatory effect on ompF2 under the growth conditions tested...
  56. pmc Identification of novel protein-protein interactions of Yersinia pestis type III secretion system by yeast two hybrid system
    Huiying Yang
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China
    PLoS ONE 8:e54121. 2013
    ..Several potential new interactions among T3SS components could help to understand the assembly and regulation of Yersinia T3SS...
  57. pmc Fur is a repressor of biofilm formation in Yersinia pestis
    Fengjun Sun
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China
    PLoS ONE 7:e52392. 2012
    ....
  58. doi request reprint AphA is required for biofilm formation, motility, and virulence in pandemic Vibrio parahaemolyticus
    Li Wang
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, China
    Int J Food Microbiol 160:245-51. 2013
    ..AphA is also necessary for the optimal swimming and swarming motility of V. parahaemolyticus. In addition, AphA is essential for lethality in mice and cytotoxic activity, but the aphA deletion did not have effect on enterotoxicity...
  59. pmc Genome plasticity of Vibrio parahaemolyticus: microevolution of the 'pandemic group'
    Haihong Han
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, PR China
    BMC Genomics 9:570. 2008
    ..parahaemolyticus. In the present work, a whole-genome cDNA microarray was constructed to compare the genomic contents of a collection of 174 strains of V. parahaemolyticus...
  60. pmc Protein microarray for profiling antibody responses to Yersinia pestis live vaccine
    Bei Li
    Laboratory of Analytical Microbiology, National Center for Biomedical Analysis, Army Center for Microbial Detection and Research, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing 100071, China
    Infect Immun 73:3734-9. 2005
    ..There are 11 proteins besides F1 and V antigens to which the predominant antibody response occurred, and these proteins show promise for further evaluation as candidates for subunit vaccines and/or diagnostic antigens...
  61. doi request reprint The complete genome sequence and proteomics of Yersinia pestis phage Yep-phi
    Xiangna Zhao
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing 100071, PR China
    J Gen Virol 92:216-21. 2011
    ..EU734170), and these comprise one subgroup. The other subgroup is represented by bacteriophage ΦA1122 (GenBank accession no. AY247822). Potential recombination was detected among the Yep-phi subgroup...
  62. doi request reprint DNA microarray-based global transcriptional profiling of Yersinia pestis in multicellularity
    Jingfu Qiu
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing 100071, P R China
    J Microbiol 46:557-63. 2008
    ..Our results revealed the global gene expression of Y. pestis were changed in the formation of multicellularity, providing insights into the molecular mechanism of multicellular behaviour, which need investigating further...
  63. pmc Transcriptional regulation of opaR, qrr2-4 and aphA by the master quorum-sensing regulator OpaR in Vibrio parahaemolyticus
    Yiquan Zhang
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China
    PLoS ONE 7:e34622. 2012
    ..harveyi, and LuxR-dependent expression of its own gene, qrr2-4 and aphA have been established in V. harveyi. Molecular regulation of target genes by the V. parahaemolyticus MQSR OpaR is still poorly understood...
  64. pmc Probing genomic diversity and evolution of Streptococcus suis serotype 2 by NimbleGen tiling arrays
    Zuowei Wu
    CAS Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China
    BMC Genomics 12:219. 2011
    ....
  65. doi request reprint A new purification strategy for fraction 1 capsular antigen and its efficacy against Yersinia pestis virulent strain challenge
    Tang Wang
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing 100071, China
    Protein Expr Purif 61:7-12. 2008
    ..pestis virulent strain 141...
  66. doi request reprint A proteome reference map and virulence factors analysis of Yersinia pestis 91001
    Lei Zhou
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, PR China
    J Proteomics 75:894-907. 2012
    ..pestis may prepare itself with various strategies in advance for its survival when it evades the hosts. The protein identifications can be accessed through PRIDE database (http://www.ebi.ac.uk/pride) with accession number 18578-18605..
  67. pmc Comparative proteomics analyses reveal the virB of B. melitensis affects expression of intracellular survival related proteins
    Yufei Wang
    Institute of Disease Control and Prevention, Academy of Military Medical Science, Beijing, China
    PLoS ONE 4:e5368. 2009
    ..The type IV secretion system encoded by the virB operon (virB) is involved in Brucella intracellular survival. However, the underlying molecular mechanisms, especially the target proteins affected by the virB, remain largely unclear...
  68. doi request reprint Cold-induced gene expression profiles of Vibrio parahaemolyticus: a time-course analysis
    Lei Yang
    Institute of Laboratory Animal Sciences, Chinese Academy of Medical Peking Union Medical College, Beijing, China
    FEMS Microbiol Lett 291:50-8. 2009
    ..parahaemolyticus. Evident regulatory motifs were conserved within the cspA promoter regions of Escherichia coli and V. parahaemolyticus. These two bacteria likely use the same mechanism to regulate the cold-inducible expression of cspA...
  69. ncbi request reprint Antibody responses to individual proteins of SARS coronavirus and their neutralization activities
    Maofeng Qiu
    Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, No 20, Dongdajie, Fengtai District, Beijing 100071, China
    Microbes Infect 7:882-9. 2005
    ....
  70. pmc Draft genome sequence of Enterococcus faecium strain LCT-EF90
    De Chang
    Nanlou Respiratory Diseases Department, Chinese PLA General Hospital, Beijing, China
    J Bacteriol 194:3556-7. 2012
    ..Here, we present the fine draft genome sequence of E. faecium LCT-EF90...
  71. doi request reprint Live-attenuated Yersinia pestis vaccines
    Xiaoyi Wang
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, 100071, China
    Expert Rev Vaccines 12:677-86. 2013
    ..pestis strains with specifically defined mutations have opened the door for developing new candidates for live-attenuated plague vaccines, with a proper balance between safety and protective efficacy...
  72. ncbi request reprint Antigenicity analysis of different regions of the severe acute respiratory syndrome coronavirus nucleocapsid protein
    Zeliang Chen
    Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing 100071, China
    Clin Chem 50:988-95. 2004
    ..For this purpose, we investigated the antigenicity of different regions of the SARS coronavirus (SARS-CoV) nucleocapsid (N) protein...
  73. pmc Serum cytokine responses in primary pneumonic plague patients
    Xiaoyi Wang
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, No 20 Dongdajie, Fentai, Beijing 100071, China
    Clin Vaccine Immunol 18:184-6. 2011
    ..IL-6 was the only elevated cytokine in the patients, and its level increased with a clear time course, indicating that IL-6 might be a prognostic marker for predicting the progression of plague...
  74. doi request reprint Rapid and quantitative detection of Brucella by up-converting phosphor technology-based lateral-flow assay
    Qing Qu
    Department of Infectious Disease Control, Beijing Institute of Disease Control and Prevention, Beijing 100071, China
    J Microbiol Methods 79:121-3. 2009
    ..0 x 10(3) to 3.9 x 10(5)CFU/mg. The UPT-LF assay showed high specificity, reproducibility and stability, providing great potential for Brucella on-site detection...
  75. pmc Histopathological observation of immunized rhesus macaques with plague vaccines after subcutaneous infection of Yersinia pestis
    Guang Tian
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China
    PLoS ONE 6:e19260. 2011
    ..Thus, Chinese-origin rhesus macaques serve as useful models in studying Y. pestis pathogenesis, host response and the efficacy of new medical countermeasures against plague...
  76. ncbi request reprint Comparative and evolutionary genomics of Yersinia pestis
    Dongsheng Zhou
    Laboratory of Analytical Microbiology, Institute of Microbiology and Epidemiology, National Center for Biomedical Analysis, Academy of Military Medical Sciences, No 20, Dongdajie, Fengtai, Beijing 100071, China
    Microbes Infect 6:1226-34. 2004
    ..Understanding the genomic variability and the adaptive evolution of Y. pestis from the genomic point of view will contribute greatly to plague detection, identification, control and prevention...
  77. pmc A glimpse of streptococcal toxic shock syndrome from comparative genomics of S. suis 2 Chinese isolates
    Chen Chen
    Beijing Genomics Institute, Chinese Academy of Sciences, Beijing, China
    PLoS ONE 2:e315. 2007
    ..However, the molecular mechanisms underlying STSS are poorly understood...
  78. pmc Molecular characterization of direct target genes and cis-acting consensus recognized by quorum-sensing regulator AphA in Vibrio parahaemolyticus
    Fengjun Sun
    Department of Pharmacy, Southwest Hospital, Third Military Medical University, Chongqing, People s Republic of China
    PLoS ONE 7:e44210. 2012
    ..Molecular regulation of target genes by AphA has been characterized in Vibrio harveyi and V. cholerae, but it is still poorly understood in V. parahaemolyticus...
  79. doi request reprint Development of an up-converting phosphor technology-based 10-channel lateral flow assay for profiling antibodies against Yersinia pestis
    Wenyan Hong
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, No 20, Dongdajie, Fengtai District, Beijing 100071, People s Republic of China
    J Microbiol Methods 83:133-40. 2010
    ..3% (44/51) and 66.7% (34/51) in patient sera, respectively. It is suggested that the TC-UPT-LF assay has been successfully developed for multi-detection and LcrV and YopD can be the potential diagnostic markers of the plague...
  80. ncbi request reprint A genome sequence of novel SARS-CoV isolates: the genotype, GD-Ins29, leads to a hypothesis of viral transmission in South China
    E de Qin
    Institute of Microbiology and Epidemiology, Chinese Academy of Military Medical Sciences, Beijing 100071, China
    Genomics Proteomics Bioinformatics 1:101-7. 2003
    ..It provides a new avenue for the exploration of the virus-host interaction in viral evolution, host pathogenesis, and vaccine development...
  81. pmc Use of the COOH portion of the nucleocapsid protein in an antigen-capturing enzyme-linked immunosorbent assay for specific and sensitive detection of severe acute respiratory syndrome coronavirus
    Maofeng Qiu
    Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, No 20, Dongdajie, Fengtai District, Beijing 100071, People s Republic of China
    Clin Diagn Lab Immunol 12:474-6. 2005
    ....
  82. ncbi request reprint Molecular and physiological insights into plague transmission, virulence and etiology
    Dongsheng Zhou
    State Key Laboratory of Pathogen and Biosecurity, National Center for Biomedical Analysis, Army Center for Microbial Detection and Research, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences AMMS, Beijing 100071, China
    Microbes Infect 8:273-84. 2006
    ..The availability of multiple genomic sequences and more extensive use of genomics and proteomics technologies should allow a comprehensive dissection of the complex of host-adaptation and virulence in Y. pestis...
  83. ncbi request reprint [Clustered regularly interspaced short palindromic repeats: structure, function and application--a review]
    Yujun Cui
    State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing 100071, China
    Wei Sheng Wu Xue Bao 48:1549-55. 2008
    ..We introduce the brief history', structure, function, bioinformatics research and application of this amazing immunity system in prokaryotic organism for inspiring more scientists to find their interest in this developing topic...
  84. doi request reprint Microarray analysis of temperature-induced transcriptome of Streptococcus suis serotype 2
    Xiaotao Zeng
    State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing, China
    Vector Borne Zoonotic Dis 11:215-21. 2011
    ..Our data provided a global profile of gene transcription induced by temperature alteration and shed light on some unforeseen lines for further pathogenesis investigation...
  85. doi request reprint Formation and regulation of Yersinia biofilms
    Dongsheng Zhou
    State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China
    Protein Cell 2:173-9. 2011
    ..Pseudotuberculosis and Y. Pestis, but Y. Pestis has evolved changes in the regulation of biofilm development, thereby acquiring efficient arthropod-borne transmission...
  86. doi request reprint Reduced apoptosis of mouse macrophages induced by yscW mutant of Yersinia pestis results from the reduced secretion of YopJ and relates to caspase-3 signal pathway
    Y Bi
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing, China
    Scand J Immunol 70:358-67. 2009
    ..This means although YscW does not induce apoptosis directly, it can indirectly affect apoptosis through reducing the secretion of YopJ...
  87. pmc Interaction between Yersinia pestis and the host immune system
    Bei Li
    Laboratory of Analytical Microbiology, State Key Laboratory of Pathogen and Biosecurity, Institute of Microbiology and Epidemiology, Beijing 100071, China
    Infect Immun 76:1804-11. 2008
  88. pmc The iron-responsive Fur regulon in Yersinia pestis
    He Gao
    College of Life Sciences, Northeast Normal University, Changchun 130024, People s Republic of China
    J Bacteriol 190:3063-75. 2008
    ..The data presented here give us an overview of the iron-responsive Fur regulon in Y. pestis...
  89. pmc The cyclic AMP receptor protein, CRP, is required for both virulence and expression of the minimal CRP regulon in Yersinia pestis biovar microtus
    Lingjun Zhan
    Institute of Laboratory Animal Sciences, Chinese Academy of Medicine Peking Union Medical College, Beijing 100021, China
    Infect Immun 76:5028-37. 2008
    ....
  90. pmc Asymptomatic Yersinia pestis infection, China
    Min Li
    Emerg Infect Dis 11:1494-6. 2005
  91. ncbi request reprint Genotyping of hepatitis B virus (HBV) by oligonucleotides microarray
    Yajun Song
    Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Fengtai District, Beijing, People s Republic of China
    Mol Cell Probes 20:121-7. 2006
    ..The accuracy of genotyping was confirmed by analyzing DNA sequences of 24 samples. It is demonstrated that low-density oligo microarray can serve as a reliable and time-saving method to HBV genotyping from patient's sera...
  92. ncbi request reprint Complete genome sequence of Yersinia pestis strain 91001, an isolate avirulent to humans
    Yajun Song
    Institute of Microbiology and Epidemiology, Academy of Military Medical Sciences, Beijing 100071, P R China
    DNA Res 11:179-97. 2004
    ..brandti might have evolved from ancestral Y. pestis in a different lineage. The large genome fragment deletions in the 91001 chromosome and some pseudogenes may contribute to its unique nonpathogenicity to humans and host-specificity...
  93. ncbi request reprint Analysis of the three Yersinia pestis CRISPR loci provides new tools for phylogenetic studies and possibly for the investigation of ancient DNA
    Gilles Vergnaud
    Universite Paris Sud, Institut de Genetique et Microbiologie, Orsay, France
    Adv Exp Med Biol 603:327-38. 2007
    ..In addition, the assay can be run in any laboratory. Interpretation of the data is not dependent on accurate sequence data...