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Volumn 10, Issue 7, 2010, Pages 1046-1051

Mutation rates of spoligotypes and variable numbers of tandem repeat loci in Mycobacterium tuberculosis

Author keywords

DR locus; Minisatellites; MIRU; MLVA; Rate of evolution; Spoligotyping; Tuberculosis

Indexed keywords

ARTICLE; BACTERIAL MUTATION; BACTERIAL TRANSMISSION; CONTROLLED STUDY; EFFECTIVE POPULATION SIZE; GENETIC VARIABILITY; MOLECULAR EPIDEMIOLOGY; MOLECULAR TYPING; MUTATION RATE; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; PRIORITY JOURNAL; SPOLIGOTYPE; VARIABLE NUMBER OF TANDEM REPEAT;

EID: 77956265375     PISSN: 15671348     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.meegid.2010.06.016     Document Type: Article
Times cited : (31)

References (56)
  • 2
    • 46749114975 scopus 로고    scopus 로고
    • Evaluation and strategy for use of MIRU-VNTRplus, a multifunctional database for online analysis of genotyping data and phylogenetic identification of Mycobacterium tuberculosis complex isolates
    • Allix-Béguec C., Harmsen D., Weniger T., Supply P., Niemann S. Evaluation and strategy for use of MIRU-VNTRplus, a multifunctional database for online analysis of genotyping data and phylogenetic identification of Mycobacterium tuberculosis complex isolates. J. Clin. Microbiol. 2008, 46(8):2692-2699.
    • (2008) J. Clin. Microbiol. , vol.46 , Issue.8 , pp. 2692-2699
    • Allix-Béguec, C.1    Harmsen, D.2    Weniger, T.3    Supply, P.4    Niemann, S.5
  • 4
    • 0004768977 scopus 로고
    • The probability function of the product of two normally distributed variables
    • Aroian L.A. The probability function of the product of two normally distributed variables. Ann. Math. Stat. 1947, 18(2):265-271.
    • (1947) Ann. Math. Stat. , vol.18 , Issue.2 , pp. 265-271
    • Aroian, L.A.1
  • 6
    • 0036147534 scopus 로고    scopus 로고
    • Global dissemination of the Mycobacterium tuberculosis W-Beijing family strains
    • Bifani P.J., Mathema B., Kurepina N.E., Kreiswirth B.N. Global dissemination of the Mycobacterium tuberculosis W-Beijing family strains. Trends Microbiol. 2002, 10(1):45-52.
    • (2002) Trends Microbiol. , vol.10 , Issue.1 , pp. 45-52
    • Bifani, P.J.1    Mathema, B.2    Kurepina, N.E.3    Kreiswirth, B.N.4
  • 9
    • 70649084195 scopus 로고    scopus 로고
    • Genotyping of genetically monomorphic bacteria: DNA sequencing in Mycobacterium tuberculosis highlights the limitations of current methodologies
    • Comas I., Homolka S., Niemann S., Gagneux S. Genotyping of genetically monomorphic bacteria: DNA sequencing in Mycobacterium tuberculosis highlights the limitations of current methodologies. PLoS ONE 2009, 4(11):e7815.
    • (2009) PLoS ONE , vol.4 , Issue.11
    • Comas, I.1    Homolka, S.2    Niemann, S.3    Gagneux, S.4
  • 10
    • 0001884734 scopus 로고
    • On the frequency function of xy
    • Craig C.C. On the frequency function of xy. Ann. Math. Stat. Mar 1936, 7(1):1-15.
    • (1936) Ann. Math. Stat. , vol.7 , Issue.1 , pp. 1-15
    • Craig, C.C.1
  • 11
    • 0033375318 scopus 로고    scopus 로고
    • Analysis of rate of change of IS6110 RFLP patterns of Mycobacterium tuberculosis based on serial patient isolates
    • de Boer A.S., Borgdorff M.W., de Haas P.E., Nagelkerke N.J., van Embden J.D., Soolingen D.V. Analysis of rate of change of IS6110 RFLP patterns of Mycobacterium tuberculosis based on serial patient isolates. J. Infect. Dis. 1999, 180(4):1238-1244.
    • (1999) J. Infect. Dis. , vol.180 , Issue.4 , pp. 1238-1244
    • de Boer, A.S.1    Borgdorff, M.W.2    de Haas, P.E.3    Nagelkerke, N.J.4    van Embden, J.D.5    Soolingen, D.V.6
  • 12
    • 0031662267 scopus 로고    scopus 로고
    • Molecular epidemiology of tuberculosis in Cuba outside of Havana, July 1994-June 1995: utility of spoligotyping versus IS6110 restriction fragment length polymorphism
    • Diaz R., Kremer K., de Haas P.E., Gomez R.I., Marrero A., Valdivia J.A., van Embden J.D., Soolingen D.V. Molecular epidemiology of tuberculosis in Cuba outside of Havana, July 1994-June 1995: utility of spoligotyping versus IS6110 restriction fragment length polymorphism. Int. J. Tuberc. Lung Dis. 1998, 2(9):743-750.
    • (1998) Int. J. Tuberc. Lung Dis. , vol.2 , Issue.9 , pp. 743-750
    • Diaz, R.1    Kremer, K.2    de Haas, P.E.3    Gomez, R.I.4    Marrero, A.5    Valdivia, J.A.6    van Embden, J.D.7    Soolingen, D.V.8
  • 14
    • 0015310384 scopus 로고
    • The sampling theory of selectively neutral alleles
    • Ewens W.J. The sampling theory of selectively neutral alleles. Theor. Popul. Biol. 1972, 3(1):87-112.
    • (1972) Theor. Popul. Biol. , vol.3 , Issue.1 , pp. 87-112
    • Ewens, W.J.1
  • 15
    • 0016121072 scopus 로고
    • A note on the sampling theory for infinite alleles and infinite sites models
    • Ewens W.J. A note on the sampling theory for infinite alleles and infinite sites models. Theor. Popul. Biol. 1974, 6(2):143-148.
    • (1974) Theor. Popul. Biol. , vol.6 , Issue.2 , pp. 143-148
    • Ewens, W.J.1
  • 16
    • 18744372699 scopus 로고    scopus 로고
    • Strain typing of Borrelia burgdorferi, Borrelia afzelii, and Borrelia garinii by using multiple-locus variable-number tandem repeat analysis
    • Farlow J., Postic D., Smith K.L., Jay Z., Baranton G., Keim P. Strain typing of Borrelia burgdorferi, Borrelia afzelii, and Borrelia garinii by using multiple-locus variable-number tandem repeat analysis. J. Clin. Microbiol. 2002, 40(12):4612-4618.
    • (2002) J. Clin. Microbiol. , vol.40 , Issue.12 , pp. 4612-4618
    • Farlow, J.1    Postic, D.2    Smith, K.L.3    Jay, Z.4    Baranton, G.5    Keim, P.6
  • 18
    • 0031750390 scopus 로고    scopus 로고
    • Genetic diversity in the Mycobacterium tuberculosis complex based on variable numbers of tandem DNA repeats
    • Frothingham R., Meeker-O'Connell W.A. Genetic diversity in the Mycobacterium tuberculosis complex based on variable numbers of tandem DNA repeats. Microbiology 1998, 144(Pt 5):1189-1196.
    • (1998) Microbiology , vol.144 , Issue.PART 5 , pp. 1189-1196
    • Frothingham, R.1    Meeker-O'Connell, W.A.2
  • 19
    • 34247152126 scopus 로고    scopus 로고
    • Global phylogeography of Mycobacterium tuberculosis and implications for tuberculosis product development
    • Gagneux S., Small P.M. Global phylogeography of Mycobacterium tuberculosis and implications for tuberculosis product development. Lancet Infect. Dis. 2007, 7(5):328-337.
    • (2007) Lancet Infect. Dis. , vol.7 , Issue.5 , pp. 328-337
    • Gagneux, S.1    Small, P.M.2
  • 20
    • 46649086304 scopus 로고    scopus 로고
    • Mathematical modelling of Mycobacterium tuberculosis VNTR loci estimates a very slow mutation rate for the repeats
    • Grant A., Arnold C., Thorne N., Gharbia S., Underwood A. Mathematical modelling of Mycobacterium tuberculosis VNTR loci estimates a very slow mutation rate for the repeats. J. Mol. E 2008, 66(6):565-574.
    • (2008) J. Mol. E , vol.66 , Issue.6 , pp. 565-574
    • Grant, A.1    Arnold, C.2    Thorne, N.3    Gharbia, S.4    Underwood, A.5
  • 21
    • 41349115471 scopus 로고    scopus 로고
    • On-line resources for bacterial micro-evolution studies using MLVA or CRISPR typing
    • Grissa I., Bouchon P., Pourcel C., Vergnaud G. On-line resources for bacterial micro-evolution studies using MLVA or CRISPR typing. Biochimie 2008, 90(4):660-668.
    • (2008) Biochimie , vol.90 , Issue.4 , pp. 660-668
    • Grissa, I.1    Bouchon, P.2    Pourcel, C.3    Vergnaud, G.4
  • 22
    • 0004810865 scopus 로고
    • Moments of the distribution of powers and products of normal variates
    • Haldane J.B.S. Moments of the distribution of powers and products of normal variates. Biometrika 1942, 32(3/4):226-242.
    • (1942) Biometrika , vol.32 , Issue.3-4 , pp. 226-242
    • Haldane, J.B.S.1
  • 25
    • 0036847772 scopus 로고    scopus 로고
    • Genomewide pattern of synonymous nucleotide substitution in two complete genomes of Mycobacterium tuberculosis
    • Hughes A.L., Friedman R., Murray M. Genomewide pattern of synonymous nucleotide substitution in two complete genomes of Mycobacterium tuberculosis. Emerg. Infect. Dis. 2002, 8(11):1342-1346.
    • (2002) Emerg. Infect. Dis. , vol.8 , Issue.11 , pp. 1342-1346
    • Hughes, A.L.1    Friedman, R.2    Murray, M.3
  • 26
    • 0036267740 scopus 로고    scopus 로고
    • Identification of genes that are associated with DNA repeats in prokaryotes
    • Jansen R., van Embden J.D.A., Gaastra W., Schouls L.M. Identification of genes that are associated with DNA repeats in prokaryotes. Mol. Microbiol. 2002, 43(6):1565-1575.
    • (2002) Mol. Microbiol. , vol.43 , Issue.6 , pp. 1565-1575
    • Jansen, R.1    van Embden, J.D.A.2    Gaastra, W.3    Schouls, L.M.4
  • 27
    • 69349104252 scopus 로고    scopus 로고
    • Supervised learning for the automated transcription of spacer classification from spoligotype films
    • Jeffries D.J., Abernethy N., de Jong B.C. Supervised learning for the automated transcription of spacer classification from spoligotype films. BMC Bioinformatics 2009, 10:248.
    • (2009) BMC Bioinformatics , vol.10 , pp. 248
    • Jeffries, D.J.1    Abernethy, N.2    de Jong, B.C.3
  • 29
    • 0028152950 scopus 로고
    • Is Mycobacterium tuberculosis 15,000 years old?
    • Kapur V., Whittam T.S., Musser J.M. Is Mycobacterium tuberculosis 15,000 years old?. J. Infect. Dis. 1994, 170(5):1348-1349.
    • (1994) J. Infect. Dis. , vol.170 , Issue.5 , pp. 1348-1349
    • Kapur, V.1    Whittam, T.S.2    Musser, J.M.3
  • 30
    • 22244459534 scopus 로고    scopus 로고
    • Multiple-locus variable number tandem repeats analysis for genetic fingerprinting of pathogenic bacteria
    • Lindstedt B.-A. Multiple-locus variable number tandem repeats analysis for genetic fingerprinting of pathogenic bacteria. Electrophoresis 2005, 26(13):2567-2582.
    • (2005) Electrophoresis , vol.26 , Issue.13 , pp. 2567-2582
    • Lindstedt, B.-A.1
  • 31
    • 39649124935 scopus 로고    scopus 로고
    • Interpreting genotype cluster sizes of Mycobacterium tuberculosis isolates typed with IS6110 and spoligotyping
    • Luciani F., Francis A.R., Tanaka M.M. Interpreting genotype cluster sizes of Mycobacterium tuberculosis isolates typed with IS6110 and spoligotyping. Infect. Genet. E 2008, 8(2):182-190.
    • (2008) Infect. Genet. E , vol.8 , Issue.2 , pp. 182-190
    • Luciani, F.1    Francis, A.R.2    Tanaka, M.M.3
  • 32
    • 70149090840 scopus 로고    scopus 로고
    • The epidemiological fitness cost of drug resistance in Mycobacterium tuberculosis
    • Luciani F., Sisson S.A., Jiang H., Francis A.R., Tanaka M.M. The epidemiological fitness cost of drug resistance in Mycobacterium tuberculosis. Proc. Natl. Acad. Sci. U.S.A. 2009, 106(34):14711-14715.
    • (2009) Proc. Natl. Acad. Sci. U.S.A. , vol.106 , Issue.34 , pp. 14711-14715
    • Luciani, F.1    Sisson, S.A.2    Jiang, H.3    Francis, A.R.4    Tanaka, M.M.5
  • 33
    • 49649115229 scopus 로고    scopus 로고
    • 24-locus MIRU-VNTR genotyping is a useful tool to study the molecular epidemiology of tuberculosis among Warao Amerindians in Venezuela
    • Maes M., Kremer K., Soolingen D.V., Takiff H., de Waard J.H. 24-locus MIRU-VNTR genotyping is a useful tool to study the molecular epidemiology of tuberculosis among Warao Amerindians in Venezuela. Tuberculosis 2008, 88(5):490-494.
    • (2008) Tuberculosis , vol.88 , Issue.5 , pp. 490-494
    • Maes, M.1    Kremer, K.2    Soolingen, D.V.3    Takiff, H.4    de Waard, J.H.5
  • 34
    • 0025944420 scopus 로고
    • Chromosomal DNA fingerprint patterns produced with IS6110 as strain-specific markers for epidemiologic study of tuberculosis
    • Mazurek G.H., Cave M.D., Eisenach K.D., Wallace R.J., Bates J.H., Crawford J.T. Chromosomal DNA fingerprint patterns produced with IS6110 as strain-specific markers for epidemiologic study of tuberculosis. J. Clin. Microbiol. 1991, 29(9):2030-2033.
    • (1991) J. Clin. Microbiol. , vol.29 , Issue.9 , pp. 2030-2033
    • Mazurek, G.H.1    Cave, M.D.2    Eisenach, K.D.3    Wallace, R.J.4    Bates, J.H.5    Crawford, J.T.6
  • 35
    • 55849142529 scopus 로고    scopus 로고
    • Mycobacterium tuberculosis Beijing genotype in Russia: in search of informative variable-number tandem-repeat loci
    • Mokrousov I., Narvskaya O., Vyazovaya A., Millet J., Otten T., Vishnevsky B., Rastogi N. Mycobacterium tuberculosis Beijing genotype in Russia: in search of informative variable-number tandem-repeat loci. J. Clin. Microbiol. 2008, 46(11):3576-3584.
    • (2008) J. Clin. Microbiol. , vol.46 , Issue.11 , pp. 3576-3584
    • Mokrousov, I.1    Narvskaya, O.2    Vyazovaya, A.3    Millet, J.4    Otten, T.5    Vishnevsky, B.6    Rastogi, N.7
  • 36
    • 33845648557 scopus 로고    scopus 로고
    • Bacterial contingency loci: the role of simple sequence DNA repeats in bacterial adaptation
    • Moxon R., Bayliss C., Hood D. Bacterial contingency loci: the role of simple sequence DNA repeats in bacterial adaptation. Annu. Rev. Genet. 2006, 40:307-333.
    • (2006) Annu. Rev. Genet. , vol.40 , pp. 307-333
    • Moxon, R.1    Bayliss, C.2    Hood, D.3
  • 37
    • 0348110225 scopus 로고    scopus 로고
    • Multilocus variable-number tandem repeat analysis distinguishes outbreak and sporadic Escherichia coli O157:H7 isolates
    • Noller A.C., McEllistrem M.C., Pacheco A.G.F., Boxrud D.J., Harrison L.H. Multilocus variable-number tandem repeat analysis distinguishes outbreak and sporadic Escherichia coli O157:H7 isolates. J. Clin. Microbiol. 2003, 41(12):5389-5397.
    • (2003) J. Clin. Microbiol. , vol.41 , Issue.12 , pp. 5389-5397
    • Noller, A.C.1    McEllistrem, M.C.2    Pacheco, A.G.F.3    Boxrud, D.J.4    Harrison, L.H.5
  • 38
    • 0015765702 scopus 로고
    • A model of mutation appropriate to estimate the number of electrophoretically detectable alleles in a finite population
    • Ohta T., Kimura M. A model of mutation appropriate to estimate the number of electrophoretically detectable alleles in a finite population. Genet. Res. 1973, 22(02):201-204.
    • (1973) Genet. Res. , vol.22 , Issue.2 , pp. 201-204
    • Ohta, T.1    Kimura, M.2
  • 39
    • 33947085963 scopus 로고
    • Confidence limits on the product of two uncertain numbers
    • Olcott R. Confidence limits on the product of two uncertain numbers. Anal. Chem. 1973, 45(9):1737-1740.
    • (1973) Anal. Chem. , vol.45 , Issue.9 , pp. 1737-1740
    • Olcott, R.1
  • 40
    • 74549206691 scopus 로고    scopus 로고
    • Bacterial genetic signatures of human social phenomena among M. tuberculosis from an Aboriginal Canadian population
    • Pepperell C., Hoeppner V., Lipatov M., Schoolnik G., Feldman M. Bacterial genetic signatures of human social phenomena among M. tuberculosis from an Aboriginal Canadian population. Mol. Biol. E 2009, 27:427-440.
    • (2009) Mol. Biol. E , vol.27 , pp. 427-440
    • Pepperell, C.1    Hoeppner, V.2    Lipatov, M.3    Schoolnik, G.4    Feldman, M.5
  • 41
    • 0141656318 scopus 로고    scopus 로고
    • Estimating change rates of genetic markers using serial samples: applications to the transposon IS6110 in Mycobacterium tuberculosis
    • Rosenberg N.A., Tsolaki A.G., Tanaka M.M. Estimating change rates of genetic markers using serial samples: applications to the transposon IS6110 in Mycobacterium tuberculosis. Theor. Popul. Biol. 2003, 63(4):347-363.
    • (2003) Theor. Popul. Biol. , vol.63 , Issue.4 , pp. 347-363
    • Rosenberg, N.A.1    Tsolaki, A.G.2    Tanaka, M.M.3
  • 42
    • 0033808899 scopus 로고    scopus 로고
    • Evolutionary dynamics of microsatellite DNA
    • Schlötterer C. Evolutionary dynamics of microsatellite DNA. Chromosoma 2000, 109(6):365-371.
    • (2000) Chromosoma , vol.109 , Issue.6 , pp. 365-371
    • Schlötterer, C.1
  • 45
    • 0034018329 scopus 로고    scopus 로고
    • Variable human minisatellite-like regions in the Mycobacterium tuberculosis genome
    • Supply P., Mazars E., Lesjean S., Vincent V., Gicquel B., Locht C. Variable human minisatellite-like regions in the Mycobacterium tuberculosis genome. Mol. Microbiol. 2000, 36(3):762-771.
    • (2000) Mol. Microbiol. , vol.36 , Issue.3 , pp. 762-771
    • Supply, P.1    Mazars, E.2    Lesjean, S.3    Vincent, V.4    Gicquel, B.5    Locht, C.6
  • 46
    • 0035974982 scopus 로고    scopus 로고
    • Optimal estimation of transposition rates of insertion sequences for molecular epidemiology
    • Tanaka M.M., Rosenberg N.A. Optimal estimation of transposition rates of insertion sequences for molecular epidemiology. Stat. Med. 2001, 20(16):2409-2420.
    • (2001) Stat. Med. , vol.20 , Issue.16 , pp. 2409-2420
    • Tanaka, M.M.1    Rosenberg, N.A.2
  • 47
    • 53749086072 scopus 로고    scopus 로고
    • SpolTools: online utilities for analyzing spoligotypes of the Mycobacterium tuberculosis complex
    • Tang C., Reyes J., Luciani F., Francis A., Tanaka M. spolTools: online utilities for analyzing spoligotypes of the Mycobacterium tuberculosis complex. Bioinformatics 2008, 24(20):2414.
    • (2008) Bioinformatics , vol.24 , Issue.20 , pp. 2414
    • Tang, C.1    Reyes, J.2    Luciani, F.3    Francis, A.4    Tanaka, M.5
  • 48
    • 53649106202 scopus 로고    scopus 로고
    • Utility of new 24-locus variable-number tandem-repeat typing for discriminating Mycobacterium tuberculosis clinical isolates collected in Bulgaria
    • Valcheva V., Mokrousov I., Narvskaya O., Rastogi N., Markova N. Utility of new 24-locus variable-number tandem-repeat typing for discriminating Mycobacterium tuberculosis clinical isolates collected in Bulgaria. J. Clin. Microbiol. 2008, 46(9):3005-3011.
    • (2008) J. Clin. Microbiol. , vol.46 , Issue.9 , pp. 3005-3011
    • Valcheva, V.1    Mokrousov, I.2    Narvskaya, O.3    Rastogi, N.4    Markova, N.5
  • 51
    • 33744982094 scopus 로고    scopus 로고
    • Effect of repeat copy number on variable-number tandem repeat mutations in Escherichia coli O157:H7
    • Vogler A.J., Keys C., Nemoto Y., Colman R.E., Jay Z., Keim P. Effect of repeat copy number on variable-number tandem repeat mutations in Escherichia coli O157:H7. J. Bacteriol. 2006, 188(12):4253-4263.
    • (2006) J. Bacteriol. , vol.188 , Issue.12 , pp. 4253-4263
    • Vogler, A.J.1    Keys, C.2    Nemoto, Y.3    Colman, R.E.4    Jay, Z.5    Keim, P.6
  • 56
    • 77956263511 scopus 로고    scopus 로고
    • Stability of Mycobacterium tuberculosis DNA genotypes
    • Yeh R., de Leon A., Agasino C., Hahn J. Stability of Mycobacterium tuberculosis DNA genotypes. J. Infect. Dis. 1998, 167:490-494.
    • (1998) J. Infect. Dis. , vol.167 , pp. 490-494
    • Yeh, R.1    de Leon, A.2    Agasino, C.3    Hahn, J.4


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