Open Access Highly Accessed Research article

Fine mapping of genetic polymorphisms of pulmonary tuberculosis within chromosome 18q11.2 in the Chinese population: a case-control study

Yaoyao Dai1, Xia Zhang2, Hongqiu Pan3, Shaowen Tang1, Hongbing Shen1 and Jianming Wang1*

Author Affiliations

1 Department of Epidemiology and Biostatistics, School of Public Health, Nanjing Medical University, Nanjing, 210029 PR China

2 Department of Tuberculosis, Nanjing Chest Hospital, Nanjing, 210029 PR China

3 Department of Tuberculosis, Third Hospital of Zhenjiang City, Zhenjiang, 212005 PR China

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BMC Infectious Diseases 2011, 11:282  doi:10.1186/1471-2334-11-282

Published: 22 October 2011

Abstract

Background

Recently, one genome-wide association study identified a susceptibility locus of rs4331426 on chromosome 18q11.2 for tuberculosis in the African population. To validate the significance of this susceptibility locus in other areas, we conducted a case-control study in the Chinese population.

Methods

The present study consisted of 578 cases and 756 controls. The SNP rs4331426 and other six tag SNPs in the 100 Kbp up and down stream of rs4331426 on chromosome 18q11.2 were genotyped by using the Taqman-based allelic discrimination system.

Results

As compared with the findings from the African population, genetic variation of the SNP rs4331426 was rare among the Chinese. No significant differences were observed in genotypes or allele frequencies of the tag SNPs between cases and controls either before or after adjusting for age, sex, education, smoking, and drinking history. However, we observed strong linkage disequilibrium of SNPs. Constructed haplotypes within this block were linked the altered risks of tuberculosis. For example, in comparison with the common haplotype AA(rs8087945-rs12456774), haplotypes AG(rs8087945-rs12456774) and GA(rs8087945-rs12456774) were associated with a decreased risk of tuberculosis, with the adjusted odds ratio(95% confidence interval) of 0.34(0.27-0.42) and 0.22(0.16-0.29), respectively.

Conclusions

Susceptibility locus of rs4331426 discovered in the African population could not be validated in the Chinese population. None of genetic polymorphisms we genotyped were related to tuberculosis in the single-point analysis. However, haplotypes on chromosome 18q11.2 might contribute to an individual's susceptibility. More work is necessary to identify the true causative variants of tuberculosis.