Genotyping of Indian Yersinia pestis strains by MLVA and repetitive DNA sequence based PCRs

Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology

Volumn 96, Issue 3, 2009, Pages 303-312

  Kingston, Joseph J ^a   Tuteja, Urmil ^b   Kapil, Minakshi ^b   Murali, Harishchandra S ^a   Batra, Harsh V ^a  

^a DRDO   (India)

^b DEFENCE RESEARCH AND DEVELOPMENT ESTABLISHMENT   (India)

Author keywords

ERIC BOX PCR; ERIC PCR; MLVA; Y. pestis

Indexed keywords

REPETITIVE DNA;

ARTICLE; BACTERIAL STRAIN; BACTERIUM ISOLATION; DNA FINGERPRINTING; DNA SEQUENCE; GENE AMPLIFICATION; GENE DELETION; GENE LOCUS; GENE MUTATION; GENOTYPE; MOLECULAR TYPING; MULTILOCUS SEQUENCE TYPING; NONHUMAN; NUCLEOTIDE SEQUENCE; POINT MUTATION; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; VARIABLE NUMBER OF TANDEM REPEAT; YERSINIA PESTIS;

ANIMALS; BACTERIAL TYPING TECHNIQUES; DISEASE OUTBREAKS; DNA, BACTERIAL; GENOTYPE; HUMANS; INDIA; MINISATELLITE REPEATS; MOLECULAR SEQUENCE DATA; PHYLOGENY; PLAGUE; POLYMERASE CHAIN REACTION; REPETITIVE SEQUENCES, NUCLEIC ACID; RODENTIA; YERSINIA PESTIS;

RODENTIA; YERSINIA PESTIS;

EID: 69249218023     PISSN: 00036072     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10482-009-9347-2     Document Type: Article

References (26)

1. Achtman M, Morelli G, Zhu P et al (2004) Microevolution and history of the plague bacillus, Yersinia pestis. Proc Natl Acad Sci USA 101:17837-17842. doi: 10.1073/pnas.0408026101
2. Anisimov AP, Lindler LE, Pier GB (2004) Intraspecific diversity of Yersinia pestis. Clin Microbiol Rev 17:434-464. doi: 10.1128/ CMR.17.2.434-464.2004
3. Batra HV, Tuteja U, Agarwal GS (1996) Isolation and identification of Yersinia pestis responsible for the recent plague outbreaks in India. Curr Sci 71:787-791
4. Chain PS, Hu P, Malfatti SA, Radnedge L, Larimer F, Vergez LM, Worsham P, Chu MC, Andersen GL (2006) Complete genome sequence of Yersinia pestis strains Antiqua and Nepal516: Evidence of gene reduction in an emerging pathogen. J Bacteriol 188:4453-4463. doi: 10.1128/JB.00124-06
5. Cui Y, Li Y, Gorgé O et al (2008) Insight into microevolution of Yersinia pestis by clustered regularly interspaced short palindromic repeats. PLoS ONE 9;3(7):e2652
6. De Gregorio E, Silvestro G, Petrillo M, Carlomagno MS, Di Nocera PP (2005) Enterobacterial repetitive intergenic consensus sequence repeats in yersiniae: Genomic organization and functional properties. J Bacteriol 187:7945-7954. doi: 10.1128/JB.187.23.7945-7954.2005
7. Drancourt M, Roux V, Dang LV, Tran-Hung L, Castex D, Chenal-Francisque V, Ogata H, Fournier PE, Crubézy E, Raoult D (2004) Genotyping, orientalis-like Yersinia pestis, and plague pandemics. Emerg Infect Dis 10:1585-1592
8. Dutt AK, Akhtar R, McVeigh M (2006) Review Surat plague of 1994 re-examined. Southeast Asian J Trop Med Public Health 37:755-760
9. Gage KL, Kosoy MY (2005) Natural history of plague: Perspectives from more than a century of research. Annu Rev Entomol 50:505-528. doi: 10.1146/annurev.ento.50.071803.130337
10. Gupta ML, Sharma A (2007) Pneumonic plague, Northern India, 2002. Emerg Infect Dis 13:664-666
11. Keim P, Price LB, Klevytska AM, Smith KL, Schupp JM, Okinaka R, Jackson PJ, Hugh-Jones ME (2000) Multiple-locus variable-number tandem repeat analysis reveals genetic relationships within Bacillus anthracis. J Bacteriol 182:2928-2936. doi: 10.1128/JB.182.10.2928-2936.2000
12. Kim W, Song MO, Song W, Kim KJ, Chung SI, Choi CS, Park YH (2003) Comparison of 16S rDNA analysis and rep-PCR genomic fingerprinting for molecular identification of Yersinia pseudotuberculosis. Antonie Van Leeuwenhoek 83:125-133. doi: 10.1023/A:1023301924932
13. Le Flèche P, Hauck Y, Onteniente L, Prieur A, Denoeud F, Ramisse V, Sylvestre P, Benson G, Ramisse F, Vergnaud G (2001) A tandem repeats database for bacterial genomes: Application to the genotyping of Yersinia pestis and Bacillus anthracis. BMC Microbiol 1:2. doi: 10.1186/ 1471-2180-1-2
14. Le Flèche P, Fabre M, Denoeud F, Koeck JL, Vergnaud G (2002) High resolution, on-line identification of strains from the Mycobacterium tuberculosis complex based on tandem repeat typing. BMC Microbiol 2:37. doi: 10.1186/1471-2180-2-37
15. Lowell JL, Wagner DM, Atshabar B, Antolin MF, Vogler AJ, Keim P, Chu MC, Gage KL (2005) Identifying sources of human exposure to plague. J Clin Microbiol 43:650-656. doi: 10.1128/JCM.43.2.650-656.2005
16. Motin VL, Georgescu AM, Elliot JM et al (2002) Genetic variability of Yersinia pestis isolates as predicted by IS100 genotyping and analysis of structural genes encoding glycerol-3-phosphate dehydrogenase (glpD). J Bacteriol 184:1019-1027. doi: 10.1128/jb.184.4.1019-1027.2002
17. Perry RD, Fetherston JD (1997) Yersinia pestis 'etiologic agent of plague. Clin Microbiol Rev 10:35-66
18. Pourcel C, André-Mazeaud F, Neubauer H, Ramisse F, Vergnaud G (2004) Tandem repeats analysis for the high-resolution phylogenetic analysis of Yersinia pestis. BMC Microbiol 4:22. doi: 10.1186/ 1471-2180-4-22
19. Sachdeva P, Virdi JS (2004) Repetitive elements sequence (REP/ERIC)-PCR based genotyping of clinical and environmental strains of Yersinia enterocolitica biotype 1A reveal existence of limited number of clonal groups. FEMS Microbiol Lett 240:193-201. doi: 10.1016/ j.femsle.2004.09.029
20. Shivaji S, Bhanu NV, Aggarwal RK (2000) Identification of Yersinia pestis as the causative organism of plague in India as determined by 16S rDNA sequencing and RAPD-based genomic fingerprinting. FEMS Microbiol Lett 189:247-252. doi: 10.1111/j.1574-6968.2000.tb09238.x
21. Tacão M, Alves A, Saavedra MJ, Correia A (2005) BOX-PCR is an adequate tool for typing Aeromonas spp. Antonie Van Leeuwenhoek 88:173-179. doi: 10.1007/s10482-005-3450-9
22. Torrea G, Chenal-Francisque V, Leclercq A, Carniel E (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. doi: 10.1128/JCM.02618-05
23. van Belkum A, Sluijuter M, de Groot R, Verbrugh H, Hermans PW (1996) Novel BOX repeat PCR assay for high-resolution typing of Streptococcus pneumoniae strains. J Clin Microbiol 34:1176-1179
24. Versalovic J, Koeuth T, Lupski JR (1991) Distribution of repetitive DNA sequences in eubacteria and application to fingerprinting of bacterial genomes. Nucleic Acids Res 9:6823-6831. doi: 10.1093/nar/19.24.6823
25. Wren BW (2003) The yersiniae - a model genus to study the rapid evolution of bacterial pathogens. Nat Rev Microbiol 1:55-64. doi: 10.1038/nrmicro730
26. Zhou D, Han Y, Song Y et al (2004) DNA microarray analysis of genome dynamics in Yersinia pestis: Insights into bacterial genome microevolution and niche adaptation. J Bacteriol 186:5138-5146. doi: 10.1128/JB.186.15.5138-5146.2004