Silent Nucleotide Polymorphisms and a Phylogeny for Mycobacterium tuberculosis

Population diversity of genetically silent nucleotide polymorphisms produces a unifying phylogeny for Mycobacterium tuberculosis.

[1]  D van Soolingen,et al.  Simultaneous detection and strain differentiation of Mycobacterium tuberculosis for diagnosis and epidemiology , 1997, Journal of clinical microbiology.

[2]  G. Bai,et al.  The rpsL gene and streptomycin resistance in single and multiple drug‐resistant strains of Mycobacterium tuberculosis , 1993, Molecular microbiology.

[3]  Z. F. Zainuddin,et al.  Insertion sequence typing of Mycobacterium tuberculosis: characterization of a widespread subtype with a single copy of IS6110. , 1994, Tubercle and lung disease : the official journal of the International Union against Tuberculosis and Lung Disease.

[4]  N. Nagelkerke,et al.  Origin and management of primary and acquired drug-resistant tuberculosis in The Netherlands: the truth behind the rates. , 1998, The international journal of tuberculosis and lung disease : the official journal of the International Union against Tuberculosis and Lung Disease.

[5]  J T Douglas,et al.  Predominance of a single genotype of Mycobacterium tuberculosis in countries of east Asia , 1995, Journal of clinical microbiology.

[6]  R. Fleischmann,et al.  Modeling Bacterial Evolution with Comparative-Genome-Based Marker Systems: Application to Mycobacterium tuberculosis Evolution and Pathogenesis , 2003, Journal of bacteriology.

[7]  S. Niemann,et al.  Differentiation of Clinical Mycobacterium tuberculosis Complex Isolates by gyrB DNA Sequence Polymorphism Analysis , 2000, Journal of Clinical Microbiology.

[8]  R. Frothingham,et al.  Genetic diversity in the Mycobacterium tuberculosis complex based on variable numbers of tandem DNA repeats. , 1998, Microbiology.

[9]  H. Kasai,et al.  Differentiation of Phylogenetically Related Slowly Growing Mycobacteria by Their gyrB Sequences , 2000, Journal of Clinical Microbiology.

[10]  J. T. Crawford,et al.  The rpoB gene of Mycobacterium tuberculosis , 1994, Antimicrobial Agents and Chemotherapy.

[11]  A. Aufderheide,et al.  Identification of Mycobacterium tuberculosis DNA in a pre-Columbian Peruvian mummy. , 1994, Proceedings of the National Academy of Sciences of the United States of America.

[12]  Sudhir Kumar,et al.  MEGA2: molecular evolutionary genetics analysis software , 2001, Bioinform..

[13]  R. Pandey,et al.  Predominace of a novel Mycobacterium tuberculosis genotype in the Delhi region of India. , 2002, Tuberculosis.

[14]  J. Musser,et al.  Negligible genetic diversity of mycobacterium tuberculosis host immune system protein targets: evidence of limited selective pressure. , 2000, Genetics.

[15]  R. Frothingham,et al.  Comparison of Methods Based on Different Molecular Epidemiological Markers for Typing of Mycobacterium tuberculosis Complex Strains: Interlaboratory Study of Discriminatory Power and Reproducibility , 1999, Journal of Clinical Microbiology.

[16]  J. Darbyshire,et al.  Tuberculosis at the end of the 20th century in England and Wales: results of a national survey in 1998 , 2001, Thorax.

[17]  B. Barrell,et al.  Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence , 1998, Nature.

[18]  F. Drobniewski,et al.  Epidemiology of Tuberculosis in the World , 1997 .

[19]  T. Whittam,et al.  Restricted structural gene polymorphism in the Mycobacterium tuberculosis complex indicates evolutionarily recent global dissemination. , 1997, Proceedings of the National Academy of Sciences of the United States of America.

[20]  K. Eisenach,et al.  Differences in the prevalence of IS6110 insertion sites in Mycobacterium tuberculosis strains: low and high copy number of IS6110. , 1997, Tubercle and lung disease : the official journal of the International Union against Tuberculosis and Lung Disease.

[21]  J. T. Crawford,et al.  Strain identification of Mycobacterium tuberculosis by DNA fingerprinting: recommendations for a standardized methodology , 1993, Journal of clinical microbiology.

[22]  C. Buchrieser,et al.  A new evolutionary scenario for the Mycobacterium tuberculosis complex , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[23]  D van Soolingen,et al.  Characterization of the catalase-peroxidase gene (katG) and inhA locus in isoniazid-resistant and -susceptible strains of Mycobacterium tuberculosis by automated DNA sequencing: restricted array of mutations associated with drug resistance. , 1996, The Journal of infectious diseases.

[24]  A. Telenti,et al.  Detection of rifampicin-resistance mutations in Mycobacterium tuberculosis , 1993, The Lancet.

[25]  S. Salzberg,et al.  Whole-Genome Comparison of Mycobacterium tuberculosis Clinical and Laboratory Strains , 2002, Journal of bacteriology.

[26]  M. Achtman,et al.  Multilocus sequence typing: a portable approach to the identification of clones within populations of pathogenic microorganisms. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[27]  Edward A Graviss,et al.  Genome-wide analysis of synonymous single nucleotide polymorphisms in Mycobacterium tuberculosis complex organisms: resolution of genetic relationships among closely related microbial strains. , 2002, Genetics.

[28]  P. L. Strickland,et al.  Phenotypic and Genotypic Characterization ofMycobacterium africanum Isolates from West Africa , 1999, Journal of Clinical Microbiology.

[29]  R Staden,et al.  The staden sequence analysis package , 1996, Molecular biotechnology.

[30]  A. Nerlich,et al.  Molecular evidence for tuberculosis in an ancient Egyptian mummy , 1997, The Lancet.

[31]  J. M. Smith,et al.  How clonal are bacteria? , 1993, Proceedings of the National Academy of Sciences of the United States of America.

[32]  J. Musser,et al.  Analysis of the oxyR-ahpC region in isoniazid-resistant and -susceptible Mycobacterium tuberculosis complex organisms recovered from diseased humans and animals in diverse localities , 1997, Antimicrobial agents and chemotherapy.

[33]  B. Barrell,et al.  Massive gene decay in the leprosy bacillus , 2001, Nature.

[34]  G. Schoolnik,et al.  The epidemiology of tuberculosis in San Francisco. A population-based study using conventional and molecular methods. , 1994, The New England journal of medicine.

[35]  L. Benson,et al.  Recombinant Mycobacterium tuberculosis KatG(S315T) is a competent catalase-peroxidase with reduced activity toward isoniazid. , 1997, The Journal of infectious diseases.

[36]  Julian Parkhill,et al.  The complete genome sequence of Mycobacterium bovis , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[37]  J. Felsenstein Evolutionary trees from DNA sequences: A maximum likelihood approach , 2005, Journal of Molecular Evolution.

[38]  J. Musser,et al.  Characterization of Mycobacterium tuberculosis Isolates from Patients in Houston, Texas, by Spoligotyping , 2000, Journal of Clinical Microbiology.

[39]  D. van Soolingen,et al.  Diagnosis of Mycobacterium microtiInfections among Humans by Using Novel Genetic Markers , 1998, Journal of Clinical Microbiology.