Plague in the genomic area

Clinical Microbiology and Infection

Volumn 18, Issue 3, 2012, Pages 224-230

  Drancourt, M ^a  

^a AIX MARSEILLE UNIVERSITY   (France)

Author keywords

Evolution; Genome; Palaeomicrobiology; Plague; Yersinia pestis

Indexed keywords

BACTERIAL STRAIN; BACTERIAL VIRULENCE; BACTERIUM ISOLATE; BIOINFORMATICS; CHINA; ECOLOGY; EPIDEMIC; GENE EXPRESSION; GENE SEQUENCE; GENETIC CODE; GENOMICS; GENOTYPE; HUMAN; INDEL MUTATION; KAZAKHSTAN; MONGOLIA; MUTATION; NONHUMAN; PHENOTYPE; PLAGUE; PRIORITY JOURNAL; PYRIMIDINE METABOLISM; REVIEW; RUSSIAN FEDERATION; SINGLE NUCLEOTIDE POLYMORPHISM; YERSINIA ENTEROCOLITICA; YERSINIA PESTIS; YERSINIA PSEUDOTUBERCULOSIS;

ANIMALIA; PEDICULUS HUMANUS; YERSINIA PESTIS; YERSINIA PSEUDOTUBERCULOSIS;

EID: 84857569500     PISSN: 1198743X     EISSN: 14690691     Source Type: Journal    
DOI: 10.1111/j.1469-0691.2012.03774.x     Document Type: Review

References (57)

1. Signoli M. Reflections regarding burials of past plague epidemics. Clin Microbiol Infect 2012; 18: 218-223.
2. Bos KI, Schuenemann VJ, Golding GB et al. A draft genome of Yersinia pestis from victims of the Black Death. Nature 2011; 478: 506-510.
3. Bernal A, Ear U, Kyrpides N. Genomes OnLine Database (GOLD): a monitor of genome projects world-wide. Nucleic Acids Res 2001; 29: 126-127.
4. Chain PS, Hu P, Malfatti SA et al. Complete genome sequence of Yersinia pestis strains Antiqua and Nepal516: evidence of gene reduction in an emerging pathogen. J Bacteriol 2006; 188: 4453-4463.
5. Deng W, Burland V, Plunkett G III et al. Genome sequence of Yersinia pestis KIM. J Bacteriol 2002; 184: 4601-4611.
6. Losada L, Varga JJ, Hostetler J et al. Genome sequencing and analysis of Yersina pestis KIM D27, an avirulent strain exempt from select agent regulation. PLoS One 2011; 6: e19054.
7. Parkhill J, Wren BW, Thomson NR et al. Genome sequence of Yersinia pestis, the causative agent of plague. Nature 2001; 413: 523-527.
8. Zhang Z, Hai R, Song Z et al. Spatial variation of Yersinia pestis from Yunnan Province of China. Am J Trop Med Hyg 2009; 81: 714-717.
9. Shen X, Wang Q, Xia L et al. Complete genome sequences of Yersinia pestis from natural foci in China. J Bacteriol 2010; 192: 3551-3552.
10. Song Y, Tong Z, Wang J et al. Complete genome sequence of Yersinia pestis strain 91001, an isolate avirulent to humans. DNA Res 2004; 11: 179-197.
11. Eppinger M, Worsham PL, Nikolich MP et al. Genome sequence of the deep-rooted Yersinia pestis strain Angola reveals new insights into the evolution and pangenome of the plague bacterium. J Bacteriol 2010; 192: 1685-1699.
12. Schuenemann VJ, Bos K, DeWitte S et al. Targeted enrichment of ancient pathogens yielding the pPCP1 plasmid of Yersinia pestis from victims of the Black Death. Proc Natl Acad Sci USA 2011; 108: E746-E752.
13. Zhou S, Deng W, Anantharaman TS et al. A whole-genome shotgun optical map of Yersinia pestis strain KIM. Appl Environ Microbiol 2002; 68: 6321-6331.
14. Zhou S, Kile A, Bechner M et al. Single-molecule approach to bacterial genomic comparisons via optical mapping. J Bacteriol 2004; 186: 7773-7782.
15. Drancourt M, Raoult D. Genotyping Yersinia pestis in historical plague. Lancet Infect Dis 2011; 11: 894-895.
16. Payne SH, Huang ST, Pieper R. A proteogenomic update to Yersinia: enhancing genome annotation. BMC Genomics 2010; 5: 460.
17. Achtman M, Zurth K, Morelli G et al. Yersinia pestis, the cause of plague, is a recently emerged clone of Yersinia pseudotuberculosis. Proc Natl Acad Sci USA 1999; 96: 14043-14048.
18. Chain PS, Carniel E, Larimer FW et al. Insights into the evolution of Yersinia pestis through whole-genome comparison with Yersinia pseudotuberculosis. Proc Natl Acad Sci USA 2004; 101: 13826-13831.
19. Merhej V, Royer-Carenzi M, Pontarotti P, Raoult D. Massive comparative genomic analysis reveals convergent evolution of specialized bacteria. Biol Direct 2009; 4: 13.
20. Georgiades K, Merhej V, El Karkouri K, Raoult D, Pontarotti P. Gene gain and loss events in Rickettsia and Orientia species. Biol Direct 2011; 6: 6.
21. Derbise A, Chenal-Francisque V, Huon C et al. Delineation and analysis of chromosomal regions specifying Yersinia pestis. Infect Immun 2010; 78: 3930-3941.
22. Derbise A, Chenal-Francisque V, Pouillot F et al. A horizontally acquired filamentous phage contributes to the pathogenicity of the plague bacillus. Mol Microbiol 2007; 63: 1145-1157.
23. Zhao X, Wu W, Qi Z et al. The complete genome sequence and proteomics of Yersinia pestis phage Yep-phi. J Gen Virol 2011; 92: 216-221.
24. Wren BW. The yersiniae-a model genus to study the rapid evolution of bacterial pathogens. Nat Rev Microbiol 2003; 1: 55-64.
25. Achtman M, Morelli G, Zhu P et al. Microevolution and history of the plague bacillus, Yersinia pestis. Proc Natl Acad Sci USA 2004; 101: 17837-17842.
26. Morelli G, Song Y, Mazzoni CJ et al. Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity. Nat Genet 2010; 42: 1140-1143.
27. Li Y, Cui Y, Hauck Y et al. Genotyping and phylogenetic analysis of Yersinia pestis by MLVA: insights into the worldwide expansion of Central Asia plague foci. PLoS One 2009; 4: e6000.
28. Devignat R. Varieties of Pasteurella pestis; new hypothesis. Bull World Health Organ 1951; 4: 247-263.
29. Zhou D, Tong Z, Song Y et al. Genetics of metabolic variations between Yersinia pestis biovars and the proposal of a new biovar, microtus. J Bacteriol 2004; 186: 5147-5152.
30. Eppinger M, Guo Z, Sebastian Y et al. Draft genome sequences of Yersinia pestis isolates from natural foci of endemic plague in China. J Bacteriol 2009; 191: 7628-7629.
31. Auerbach RK, Tuanyok A, Probert WS et al. Yersinia pestis evolution on a small timescale: comparison of whole genome sequences from North America. PLoS One 2007; 2: e770.
32. Yersin A. La peste bubonique à Hong-Kong. Ann Inst Pasteur 1894; 8: 662-667.
33. Karimi Y. Natural preservation of plague in soil. Bull Soc Pathol Exot Filiales 1963; 56: 1183-1186.
34. Mollaret HH. Experimental preservation of plague in soil. Bull Soc Pathol Exot Filiales 1963; 56: 1168-1182.
35. Ayyadurai S, Houhamdi L, Lepidi H et al. Long-term persistence of virulent Yersinia pestis in soil. Microbiology 2008; 154: 2865-2871.
36. Eisen RJ, Petersen JM, Higgins CL et al. Persistence of Yersinia pestis in soil under natural conditions. Emerg Infect Dis 2008; 14: 941-943.
37. Touchman JW, Wagner DM, Hao J et al. A North American Yersinia pestis draft genome sequence: SNPs and phylogenetic analysis. PLoS One 2007; 2: e220.
38. Dai E, Tong Z, Wang X et al. Identification of different regions among strains of Yersinia pestis by suppression subtractive hybridization. Res Microbiol 2005; 156: 785-789.
39. Vogler AJ, Chan F, Wagner DM et al. Phylogeography and molecular epidemiology of Yersinia pestis in Madagascar. PLoS Negl Trop Dis 2011; 5: e1319.
40. Charusanti P, Chauhan S, McAteer K et al. An experimentally-supported genome-scale metabolic network reconstruction for Yersinia pestis CO92. BMC Syst Biol 2011; 5: 163.
41. Navid A, Almaas E. Genome-scale reconstruction of the metabolic network in Yersinia pestis, strain 91001. Mol Biosyst 2009; 5: 368-375.
42. Pourcel C, Salvignol G, Vergnaud G. CRISPR elements in Yersinia pestis acquire new repeats by preferential uptake of bacteriophage DNA, and provide additional tools for evolutionary studies. Microbiology 2005; 151: 653-663.
43. Houhamdi L, Lepidi H, Drancourt M, Raoult D. Experimental model to evaluate the human body louse as a vector of plague. J Infect Dis 2006; 194: 1589-1596.
44. Ayyadurai S, Sebbane F, Raoult D, Drancourt M. Body lice, Yersinia pestis Orientalis, and black death. Emerg Infect Dis 2010; 16: 892-893.
45. Zhou L, Ying W, Han Y et al. A proteome reference map and virulence factors analysis of Yersinia pestis 91001. J Proteomics 2012; 75: 894-907.
46. Chauvaux S, Rosso ML, Frangeul L et al. Transcriptome analysis of Yersinia pestis in human plasma: an approach for discovering bacterial genes involved in septicaemic plague. Microbiology 2007; 153: 3112-3124.
47. Georgiades K, Raoult D. Genomes of the most dangerous epidemic bacteria have a virulence repertoire characterized by fewer genes but more toxin-antitoxin modules. PLoS One 2011; 6: e17962.
48. Goulard C, Langrand S, Carniel E, Chauvaux S. The Yersinia pestis chromosome encodes active addiction toxins. J Bacteriol 2010; 192: 3669-3677.
49. Drancourt M, Aboudharam G, Signoli M, Dutour O, Raoult D. Detection of 400-year-old Yersinia pestis DNA in human dental pulp: an approach to the diagnosis of ancient septicemia. Proc Natl Acad Sci USA 1998; 95: 12637-12640.
50. Drancourt M, Roux V, Dang LV et al. Genotyping, Orientalis-like Yersinia pestis, and plague pandemics. Emerg Infect Dis 2004; 10: 1585-1592.
51. Drancourt M, Signoli M, Dang LV et al. Yersinia pestis Orientalis in remains of ancient plague patients. Emerg Infect Dis 2007; 13: 332-333.
52. Motin VL, Georgescu AM, Elliott JM et al. 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 2002; 184: 1019-1027.
53. Haensch S, Bianucci R, Signoli M et al. Distinct clones of Yersinia pestis caused the black death. PLoS pathogens 2010; 6: e1001134.
54. Vogler AJ, Driebe EM, Lee J et al. Assays for the rapid and specific identification of North American Yersinia pestis and the common laboratory strain CO92. BioTechniques 2008; 44: 201-207.
55. Cui Y, Li Y, Gorgé O et al. Insight into microevolution of Yersinia pestis by clustered regularly interspaced short palindromic repeats. PLoS One 2008; 3: e2652.
56. Keasey SL, Schmid KE, Lee MS et al. Extensive antibody cross-reactivity among infectious gram-negative bacteria revealed by proteome microarray analysis. Mol Cell Proteomics 2009; 8: 924-935.
57. Wolfe LL, Shenk TM, Powell B, Rocke TE. Assessment of a recombinant f1-v fusion protein vaccine intended to protect Canada lynx (Lynx canadensis) from plague. J Wildl Dis 2011; 47: 888-892.