Draft genome sequences of Yersinia pestis isolates from natural foci of endemic plague in China

Journal of Bacteriology

Volumn 191, Issue 24, 2009, Pages 7628-7629

  Eppinger, Mark ^a   Guo, Zhaobiao ^b   Sebastian, Yinong ^c   Song, Yajun ^b,e   Lindler, Luther E ^d   Yang, Ruifu ^b   Ravel, Jacques ^a  

^a UNIVERSITY OF MARYLAND SCHOOL OF MEDICINE   (United States)

^b BEIJING INSTITUTE OF MICROBIOLOGY AND EPIDEMIOLOGY   (China)

^c J CRAIG VENTER INSTITUTE   (United States)

^d Global Emerging Infections Surveillance and Response System   (United States)

^e UNIVERSITY COLLEGE CORK   (Ireland)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BACTERIAL GENOME; CHINA; ENDEMIC DISEASE; GENOTYPE; NONHUMAN; PATHOGENICITY; PHENOTYPE; PLAGUE; PLASMID; PRIORITY JOURNAL; YERSINIA PESTIS;

ANIMALS; CHINA; DISEASE RESERVOIRS; DNA, BACTERIAL; ENDEMIC DISEASES; GENOME, BACTERIAL; HUMANS; MOLECULAR SEQUENCE DATA; PLAGUE; RODENTIA; SEQUENCE ANALYSIS, DNA; YERSINIA PESTIS;

RODENTIA; YERSINIA PESTIS;

EID: 72449153536     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.01227-09     Document Type: Article

References (24)

1. Achtman, M., G. Morelli, P. Zhu, T. Wirth, I. Diehl, B. Kusecek, A. J. Vogler, D. M. Wagner, C. J. Allender, W. R. Easterday, V. Chenal-Francisque, P. Worsham, N. R. Thomson, J. Parkhill, L. E. Lindler, E. Carniel, and P. Keim. 2004. Microevolution and history of the plague bacillus, Yersinia pestis. Proc. Natl. Acad. Sci. USA 101:17837-17842.
2. Adair, D. M., P. L. Worsham, K. K. Hill, A. M. Klevytska, P. J. Jackson, A. M. Friedlander, and P. Keim. 2000. Diversity in a variable-number tandem repeat from Yersinia pestis. J. Clin. Microbiol. 38:1516-1519.
3. Chain, P. S., E. Carniel, F. W. Larimer, J. Lamerdin, P. O. Stoutland, W. M. Regala, A. M. Georgescu, L. M. Vergez, M. L. Land, V. L. Motin, R. R. Brubaker, J. Fowler, J. Hinnebusch, M. Marceau, C. Medigue, M. Simonet, V. Chenal-Francisque, B. Souza, D. Dacheux, J. M. Elliott, A. Derbise, L. J. Hauser, and E. Garcia. 2004. Insights into the evolution of Yersinia pestis through whole-genome comparison with Yersinia pseudotuberculosis. Proc. Natl. Acad. Sci. USA 101:13826-13831.
4. Cornelius, C. A., L. E. Quenee, D. Elli, N. A. Ciletti, and O. Schneewind. 2009. Yersinia pestis IS1541 transposition provides for escape from plague immunity. Infect. Immun. 77:1807-1816.
5. Darling, A. C., B. Mau, F. R. Blattner, and N. T. Perna. 2004. Mauve: multiple alignment of conserved genomic sequence with rearrangements. Genome Res. 14:1394-1403. (Pubitemid 39029237)
6. Darling, A. E., I. Miklos, and M. A. Ragan. 2008. Dynamics of genome rearrangement in bacterial populations. PLoS Genet. 4:e1000128.
7. Deng, W., V. Burland, G. Plunkett III, A. Boutin, G. F. Mayhew, P. Liss, N. T. Perna, D. J. Rose, B. Mau, S. Zhou, D. C. Schwartz, J. D. Fetherston, L. E. Lindler, R. R. Brubaker, G. V. Plano, S. C. Straley, K. A. McDonough, M. L. Nilles, J. S. Matson, F. R. Blattner, and R. D. Perry. 2002. Genome sequence of Yersinia pestis KIM. J. Bacteriol. 184:4601-4611.
8. Eppinger, M., M. J. Rosovitz, W. F. Fricke, D. A. Rasko, G. Kokorina, C. Fayolle, L. E. Lindler, E. Carniel, and J. Ravel. 2007. The complete genome sequence of Yersinia pseudotuberculosis IP31758, the causative agent of Far East scarlet-like fever. PLoS Genet. 3:e142.
9. Fetherston, J. D., P. Schuetze, and R. D. Perry. 1992. Loss of the pigmentation phenotype in Yersinia pestis is due to the spontaneous deletion of 102 kb of chromosomal DNA which is flanked by a repetitive element. Mol. Microbiol. 6:2693-2704.
10. Gonzalez, M. D., C. A. Lichtensteiger, R. Caughlan, and E. R. Vimr. 2002. Conserved filamentous prophage in Escherichia coli O18:K1:H7 and Yersinia pestis biovar orientalis. J. Bacteriol. 184:6050-6055.
11. Huson, D. H., K. Reinert, S. A. Kravitz, K. A. Remington, A. L. Delcher, I. M. Dew, M. Flanigan, A. L. Halpern, Z. Lai, C. M. Mobarry, G. G. Sutton, and E. W. Myers. 2001. Design of a compartmentalized shotgun assembler for the human genome. Bioinformatics 17(Suppl. 1):S132-S139. (Pubitemid 33793503)
12. Klevytska, A. M., L. B. Price, J. M. Schupp, P. L. Worsham, J. Wong, and P. Keim. 2001. Identification and characterization of variable-number tandem repeats in the Yersinia pestis genome. J. Clin. Microbiol. 39:3179-3185.
13. Li, Y., E. Dai, Y. Cui, M. Li, Y. Zhang, M. Wu, D. Zhou, Z. Guo, X. Dai, B. Cui, Z. Qi, Z. Wang, H. Wang, X. Dong, Z. Song, J. Zhai, Y. Song, and R. Yang. 2008. Different region analysis for genotyping Yersinia pestis isolates from China. PLoS ONE 3:e2166.
14. Motin, V. L., A. M. Georgescu, J. M. Elliott, P. Hu, P. L. Worsham, L. L. Ott, T. R. Slezak, B. A. Sokhansanj, W. M. Regala, R. R. Brubaker, and E. Garcia. 2002. Genetic variability of Yersinia pestis isolates as predicted by PCR-based IS100 genotyping and analysis of structural genes encoding glycerol-3-phosphate dehydrogenase (glpD). J. Bacteriol. 184:1019-1027.
15. Nelson, K. E., R. A. Clayton, S. R. Gill, M. L. Gwinn, R. J. Dodson, D. H. Haft, E. K. Hickey, J. D. Peterson, W. C. Nelson, K. A. Ketchum, L. Mc-Donald, T. R. Utterback, J. A. Malek, K. D. Linher, M. M. Garrett, A. M. Stewart, M. D. Cotton, M. S. Pratt, C. A. Phillips, D. Richardson, J. Heidelberg, G. G. Sutton, R. D. Fleischmann, J. A. Eisen, O. White, S. L. Salzberg, H. O. Smith, J. C. Venter, and C. M. Fraser. 1999. Evidence for lateral gene transfer between Archaea and bacteria from genome sequence of Thermotoga maritima. Nature 399:323-329.
16. Parkhill, J., B. W. Wren, N. R. Thomson, R. W. Titball, M. T. Holden, M. B. Prentice, M. Sebaihia, K. D. James, C. Churcher, K. L. Mungall, S. Baker, D. Basham, S. D. Bentley, K. Brooks, A. M. Cerdeno-Tarraga, T. Chillingworth, A. Cronin, R. M. Davies, P. Davis, G. Dougan, T. Feltwell, N. Hamlin, S. Holroyd, K. Jagels, A. V. Karlyshev, S. Leather, S. Moule, P. C. Oyston, M. Quail, K. Rutherford, M. Simmonds, J. Skelton, K. Stevens, S. Whitehead, and B. G. Barrell. 2001. Genome sequence of Yersinia pestis, the causative agent of plague. Nature 413:523-527.
17. Rasko, D. A., G. S. Myers, and J. Ravel. 2005. Visualization of comparative genomic analyses by BLAST score ratio. BMC Bioinformatics 6:2.
18. Rissman, A. I., B. Mau, B. S. Biehl, A. E. Darling, J. D. Glasner, and N. T. Perna. 2009. Reordering contigs of draft genomes using the Mauve aligner. Bioinformatics 25:2071-2073.
19. Song, Y., Z. Tong, J. Wang, L. Wang, Z. Guo, Y. Han, J. Zhang, D. Pei, D. Zhou, H. Qin, X. Pang, Y. Han, J. Zhai, M. Li, B. Cui, Z. Qi, L. Jin, R. Dai, F. Chen, S. Li, C. Ye, Z. Du, W. Lin, J. Wang, J. Yu, H. Yang, J. Wang, P. Huang, and R. Yang. 2004. Complete genome sequence of Yersinia pestis strain 91001, an isolate avirulent to humans. DNA Res. 11:179-197.
20. Tong, Z., D. Zhou, Y. Song, L. Zhang, D. Pei, Y. Han, X. Pang, M. Li, B. Cui, J. Wang, Z. Guo, Z. Qi, L. Jin, J. Zhai, Z. Du, J. Wang, X. Wang, J. Yu, J. Wang, P. Huang, H. Yang, and R. Yang. 2005. Pseudogene accumulation might promote the adaptive microevolution of Yersinia pestis. J. Med. Microbiol. 54:259-268.
21. Torrea, G., V. Chenal-Francisque, A. Leclercq, and E. Carniel. 2006. Efficient tracing of global isolates of Yersinia pestis by restriction fragment length polymorphism analysis using three insertion sequences as probes. J. Clin. Microbiol. 44:2084-2092.
22. Wang, X., D. Zhou, L. Qin, E. Dai, J. Zhang, Y. Han, Z. Guo, Y. Song, Z. Du, J. Wang, J. Wang, and R. Yang. 2006. Genomic comparison of Yersinia pestis and Yersinia pseudotuberculosis by combination of suppression subtractive hybridization and DNA microarray. Arch. Microbiol. 186:151-159.
23. Wren, B. W. 2003. The yersiniae-a model genus to study the rapid evolution of bacterial pathogens. Nat. Rev. Microbiol. 1:55-64.
24. Zhou, D., Y. Han, Y. Song, P. Huang, and R. Yang. 2004. Comparative and evolutionary genomics of Yersinia pestis. Microbes Infect. 6:1226-1234.