Phylogeny of Mycobacterium tuberculosis Beijing strains constructed from Polymorphisms in genes involved in DNA replication, recombination and repair

PLoS ONE

Volumn 6, Issue 1, 2011, Pages

  Mestre, Olga ^a   Luo, Tao ^b   Dos Vultos, Tiago ^a,i   Kremer, Kristin ^c   Murray, Alan ^a,d   Namouchi, Amine ^a   Jackson, Céline ^a   Rauzier, Jean ^a   Bifani, Pablo ^e   Warren, Rob ^f   Rasolofo, Voahangy ^g   Mei, Jian ^h   Gao, Qian ^b   Gicquel, Brigitte ^a  

^a INSTITUT PASTEUR   (France)

^b FUDAN UNIVERSITY   (China)

^c NATIONAL INSTITUTE FOR PUBLIC HEALTH AND THE ENVIRONMENT   (Netherlands)

^d MASSEY UNIVERSITY   (New Zealand)

^e SCIENTIFIC INSTITUTE OF PUBLIC HEALTH   (Belgium)

^f STELLENBOSCH UNIVERSITY   (South Africa)

^g INSTITUT PASTEUR DE MADAGASCAR   (Madagascar)

^h Shanghai Municipal CDC ^*  (China)

ⁱ INSTITUTO DE TECNOLOGIA QUÍMICA E BIOLÓGICA   (Portugal)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CHINA; CONTROLLED STUDY; DNA RECOMBINATION; DNA REPAIR; DNA REPLICATION; GENE SEQUENCE; GENETIC MARKER; GENETIC VARIABILITY; GENOTYPE; GEOGRAPHIC ORIGIN; GEOGRAPHICAL VARIATION (SPECIES); MOLECULAR EVOLUTION; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; PHYLOGENY; SEQUENCE ANALYSIS; SINGLE NUCLEOTIDE POLYMORPHISM; CLASSIFICATION; GENETIC RECOMBINATION; GENETICS; HEREDITY; METABOLISM;

MYCOBACTERIUM TUBERCULOSIS;

BACTERIAL DNA;

DNA REPAIR; DNA REPLICATION; DNA, BACTERIAL; GENETIC PROCESSES; MYCOBACTERIUM TUBERCULOSIS; PHYLOGENY; POLYMORPHISM, SINGLE NUCLEOTIDE; RECOMBINATION, GENETIC;

EID: 79251645127     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0016020     Document Type: Article

References (21)

1. Anonymous (2008) WHO report 2008: global tuberculosis control-surveillance, planning, financing. Geneva, Switzerland: World Health Organization.
2. Van Soolingen D (2001) Molecular epidemiology of tuberculosis and other mycobacterial infections: main methodologies and achievements. J Intern Med 249: 1-26.
3. Kremer K, Glynn JR, Lillebaek T, Niemann S, Kurepina NE, et al. (2004) Definition of the Beijing/W lineage of Mycobacterium tuberculosis on the basis of genetic markers. J Clin Microbiol 42: 4040-4049.
4. European Concerted Action on New Generation Genetic Markers and Techniques for the Epidemiology and Control of Tuberculosis (2006) Beijing/W genotype Mycobacterium tuberculosis and drug resistance. Emerg Infect Dis, 2006/05/18 ed. pp 736-743.
5. Bifani PJ, Mathema B, Kurepina NE, Kreiswirth BN (2002) Global dissemination of the Mycobacterium tuberculosis W-Beijing family strains. Trends Microbiol 10: 45-52.
6. Kremer K, Au BK, Yip PC, Skuce R, Supply P, et al. (2005) Use of variablenumber tandem-repeat typing to differentiate Mycobacterium tuberculosis Beijing family isolates from Hong Kong and comparison with IS6110 restriction fragment length polymorphism typing and spoligotyping. J Clin Microbiol 43: 314-320.
7. Zhang L, Chen J, Shen X, Gui X, Mei J, et al. (2008) Highly polymorphic variable-number tandem repeats loci for differentiating Beijing genotype strains of Mycobacterium tuberculosis in Shanghai, China. FEMS Microbiol Lett 282: 22-31.
8. Achtman M (2008) Evolution, population structure, and phylogeography of genetically monomorphic bacterial pathogens. Annu Rev Microbiol 62: 53-70.
9. Baker L, Brown T, Maiden MC, Drobniewski F (2004) Silent nucleotide polymorphisms and a phylogeny for Mycobacterium tuberculosis. Emerg Infect Dis 10: 1568-1577.
10. Filliol I, Motiwala AS, Cavatore M, Qi W, Hazbon MH, et al. (2006) Global phylogeny of Mycobacterium tuberculosis based on single nucleotide polymorphism (SNP) analysis: insights into tuberculosis evolution, phylogenetic accuracy of other DNA fingerprinting systems, and recommendations for a minimal standard SNP set. J Bacteriol 188: 759-772.
11. Gutacker MM, Smoot JC, Migliaccio CA, Ricklefs SM, Hua S, et al. (2002) Genome-wide analysis of synonymous single nucleotide polymorphisms in Mycobacterium tuberculosis complex organisms: resolution of genetic relationships among closely related microbial strains. Genetics 162: 1533-1543.
12. Hershberg R, Lipatov M, Small PM, Sheffer H, Niemann S, et al. (2008) High functional diversity in Mycobacterium tuberculosis driven by genetic drift and human demography. PLoS Biol 6: e311.
13. Dos Vultos T, Mestre O, Rauzier J, Golec M, Rastogi N, et al. (2008) Evolution and diversity of clonal bacteria: the paradigm of Mycobacterium tuberculosis. PLoS One 3: e1538.
14. Tsolaki AG, Gagneux S, Pym AS, Goguet de la Salmoniere YO, Kreiswirth BN, et al. (2005) Genomic deletions classify the Beijing/W strains as a distinct genetic lineage of Mycobacterium tuberculosis. J Clin Microbiol 43: 3185-3191.
15. Rad ME, Bifani P, Martin C, Kremer K, Samper S, et al. (2003) Mutations in putative mutator genes of Mycobacterium tuberculosis strains of the W-Beijing family. Emerg Infect Dis 9: 838-845.
16. Bandelt HJ, Forster P, Rohl A (1999) Median-joining networks for inferring intraspecific phylogenies. Mol Biol Evol 16: 37-48.
17. Caminero JA, Pena MJ, Campos-Herrero MI, Rodriguez JC, Garcia I, et al. (2001) Epidemiological evidence of the spread of a Mycobacterium tuberculosis strain of the Beijing genotype on Gran Canaria Island. Am J Respir Crit Care Med 164: 1165-1170.
18. Rindi L, Lari N, Cuccu B, Garzelli C (2009) Evolutionary pathway of the Beijing lineage of Mycobacterium tuberculosis based on genomic deletions and mutT genes polymorphisms. Infect Genet Evol 9: 48-53.
19. Moreland NJ, Charlier C, Dingley AJ, Baker EN, Lott JS (2009) Making sense of a missense mutation: characterization of MutT2, a Nudix hydrolase from Mycobacterium tuberculosis, and the G58R mutant encoded in W-Beijing strains of M. tuberculosis. Biochemistry 48: 699-708.
20. Sreevatsan S, Pan X, Stockbauer KE, Connell ND, Kreiswirth BN, et al. (1997) Restricted structural gene polymorphism in the Mycobacterium tuberculosis complex indicates evolutionarily recent global dissemination. Proc Natl Acad Sci U S A 94: 9869-9874.
21. Denamur E, Matic I (2006) Evolution of mutation rates in bacteria. Mol Microbiol 60: 820-827.