Comparing genomes within the species Mycobacterium tuberculosis

Kato-Maeda, M., Rhee, J. T., Gingeras, T. R., Salamon, H., Drenkow, J., Smittipat, N., Small, P. M. (2001) Comparing genomes within the species Mycobacterium tuberculosis. Genome Research, 11 (4). pp. 547-554. ISSN 10889051 (ISSN) (Public Dataset)

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DOI: 10.1101/gr.166401


The study of genetic variability within natural populations of pathogens may provide insight into their evolution and pathogenesis. We used a Mycobacterium tuberculosis high-density oligonucleotide microarray to detect small-scale genomic deletions among 19 clinically and epidemiologically well-characterized isolates of M. tuberculosis. The pattern of deletions detected was identical within mycobacterial clones but differed between different clones, suggesting that this is a suitable genotyping system for epidemiologic studies. An analysis of genomic deletions among an extant population of pathogenic bacteria provided a novel perspective on genomic organization and evolution. Deletions are likely to contain ancestral genes whose functions are no longer essential for the organism's survival, whereas genes that are never deleted constitute the minimal mycobacterial genome. As the amount of genomic deletion increased, the likelihood that the bacteria will cause pulmonary cavitation decreased, suggesting that the accumulation of mutations tends to diminish their pathogenicity. Array-based comparative genomics is a promising approach to exploring molecular epidemiology, microbial evolution, and pathogenesis.

Item Type: Paper
Uncontrolled Keywords: DNA bacterium comparative study controlled study DNA microarray evolution gene deletion gene function gene isolation genetic analysis genetic epidemiology genetic variability genome genotype human human cell letter lung cavitation major clinical study molecular cloning Mycobacterium Mycobacterium tuberculosis natural population nonhuman nucleotide sequence pathogenesis pathogenicity priority journal species differentiation survival Evolution Molecular Genome, Bacterial Humans Oligonucleotide Array Sequence Analysis San Francisco Sequence Deletion Species Specificity Tuberculosis Actinobacteria class Bacteria microorganisms Prokaryota uncultured actinomycete
Subjects: bioinformatics > genomics and proteomics > analysis and processing > microarray gene expression processing
organism description > bacteria
CSHL Authors:
Communities: CSHL labs > Gingeras lab
Depositing User: CSHL Librarian
Date: 2001
Date Deposited: 13 Mar 2012 13:48
Last Modified: 15 Jul 2013 16:30
PMCID: PMC311074
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