Population-based study of deletions in five different genomic regions of Mycobacterium tuberculosis and possible clinical relevance of the deletions

Y. Kong, M. D. Cave, L. Zhang, B. Foxman, C. F. Marrs, J. H. Bates, Z. H. Yang

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Abstract

Regions of difference (RDs) have been described in clinical isolates of Mycobacterium tuberculosis, but the potential epidemiological and clinical relevance of the genotypes of these RDs remains to be investigated. We screened a population-based sample of 648 isolates for the deletion of five RDs, designated RD105, RD181, RD142, RD150, and RD239, using microarray-based hybridization, PCR, and DNA sequencing and assessed the associations between the RD deletions and the clinical characteristics of the patients using chi-square analysis and multivariate logistic regression model. Of the 648 isolates, 18 (2.8%) had the RD239 deletion and 39 (6.0%) had the RD105 deletion. The deletions of RD142, RD150, and RD181 subdivided the isolates with the RD105 deletion into four groups comprising a group with concurrent deletions of RB105, RD181, and RD142 (n = 13); a group with concurrent deletions of RB105, RD181, and RD150 (n = 5); a group with concurrent deletions of RD105 and RD181 (n = 13); and a group with a deletion of RD105 only (n = 8). Extrathoracic tuberculosis is statistically significantly associated with infection with the isolates with concurrent deletions of RD105, RD181, and RD142 (adjusted odds ratio [OR] = 3.05; 95% confidence interval [CI] = 1.58, 5.90) and the isolates with concurrent deletions of RD105, RD181, and RD150 (adjusted OR = 11.09; 95% CI = 4.27, 28.80), after controlling for the previously identified risk factors for extrathoracic tuberculosis (human immunodeficiency virus serostatus, race, gender, and the genotype of the plcD gene). These two combinations of RD deletions have the potential for predicting the clinical presentation of M. tuberculosis infection in the human host.

Original languageEnglish (US)
Pages (from-to)3940-3946
Number of pages7
JournalJournal of Clinical Microbiology
Volume44
Issue number11
DOIs
StatePublished - Nov 1 2006

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Mycobacterium tuberculosis
Tuberculosis
Logistic Models
Odds Ratio
Genotype
Confidence Intervals
Mycobacterium Infections
DNA Sequence Analysis
Population
Multivariate Analysis
HIV
Polymerase Chain Reaction
Infection
Genes

All Science Journal Classification (ASJC) codes

  • Microbiology (medical)

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Population-based study of deletions in five different genomic regions of Mycobacterium tuberculosis and possible clinical relevance of the deletions. / Kong, Y.; Cave, M. D.; Zhang, L.; Foxman, B.; Marrs, C. F.; Bates, J. H.; Yang, Z. H.

In: Journal of Clinical Microbiology, Vol. 44, No. 11, 01.11.2006, p. 3940-3946.

Research output: Contribution to journalArticle

Kong, Y. ; Cave, M. D. ; Zhang, L. ; Foxman, B. ; Marrs, C. F. ; Bates, J. H. ; Yang, Z. H. / Population-based study of deletions in five different genomic regions of Mycobacterium tuberculosis and possible clinical relevance of the deletions. In: Journal of Clinical Microbiology. 2006 ; Vol. 44, No. 11. pp. 3940-3946.
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abstract = "Regions of difference (RDs) have been described in clinical isolates of Mycobacterium tuberculosis, but the potential epidemiological and clinical relevance of the genotypes of these RDs remains to be investigated. We screened a population-based sample of 648 isolates for the deletion of five RDs, designated RD105, RD181, RD142, RD150, and RD239, using microarray-based hybridization, PCR, and DNA sequencing and assessed the associations between the RD deletions and the clinical characteristics of the patients using chi-square analysis and multivariate logistic regression model. Of the 648 isolates, 18 (2.8{\%}) had the RD239 deletion and 39 (6.0{\%}) had the RD105 deletion. The deletions of RD142, RD150, and RD181 subdivided the isolates with the RD105 deletion into four groups comprising a group with concurrent deletions of RB105, RD181, and RD142 (n = 13); a group with concurrent deletions of RB105, RD181, and RD150 (n = 5); a group with concurrent deletions of RD105 and RD181 (n = 13); and a group with a deletion of RD105 only (n = 8). Extrathoracic tuberculosis is statistically significantly associated with infection with the isolates with concurrent deletions of RD105, RD181, and RD142 (adjusted odds ratio [OR] = 3.05; 95{\%} confidence interval [CI] = 1.58, 5.90) and the isolates with concurrent deletions of RD105, RD181, and RD150 (adjusted OR = 11.09; 95{\%} CI = 4.27, 28.80), after controlling for the previously identified risk factors for extrathoracic tuberculosis (human immunodeficiency virus serostatus, race, gender, and the genotype of the plcD gene). These two combinations of RD deletions have the potential for predicting the clinical presentation of M. tuberculosis infection in the human host.",
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