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Genome-wide association study identifies two risk loci for tuberculosis in Han Chinese.

ABSTRACT: Tuberculosis (TB) is an infectious disease caused by Mycobacterium tuberculosis (Mtb), and remains a leading public health problem. Previous studies have identified host genetic factors that contribute to Mtb infection outcomes. However, much of the heritability in TB remains unaccounted for and additional susceptibility loci most likely exist. We perform a multistage genome-wide association study on 2949 pulmonary TB patients and 5090 healthy controls (833 cases and 1220 controls were genome-wide genotyped) from Han Chinese population. We discover two risk loci: 14q24.3 (rs12437118, Pcombined?=?1.72?×?10-11, OR?=?1.277, ESRRB) and 20p13 (rs6114027, Pcombined?=?2.37?×?10-11, OR?=?1.339, TGM6). Moreover, we determine that the rs6114027 risk allele is related to decreased TGM6 transcripts in PBMCs from pulmonary TB patients and severer pulmonary TB disease. Furthermore, we find that tgm6-deficient mice are more susceptible to Mtb infection. Our results provide new insights into the genetic etiology of TB.

SUBMITTER: Zheng R

PROVIDER: S-EPMC6172286 | biostudies-literature | 2018 Oct

REPOSITORIES: biostudies-literature

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Genome-wide association study identifies two risk loci for tuberculosis in Han Chinese.

Zheng Ruijuan R Li Zhiqiang Z He Fusheng F Liu Haipeng H Chen Jianhua J Chen Jiayu J Xie Xuefeng X Zhou Juan J Chen Hao H Wu Xiangyang X Wu Juehui J Chen Boyu B Liu Yahui Y Cui Haiyan H Fan Lin L Sha Wei W Liu Yin Y Wang Jiqiang J Huang Xiaochen X Zhang Linfeng L Xu Feifan F Wang Jie J Feng Yonghong Y Qin Lianhua L Yang Hua H Liu Zhonghua Z Cui Zhenglin Z Liu Feng F Chen Xinchun X Gao Shaorong S Sun Silong S Shi Yongyong Y Ge Baoxue B

Nature communications 20181004 1

Tuberculosis (TB) is an infectious disease caused by Mycobacterium tuberculosis (Mtb), and remains a leading public health problem. Previous studies have identified host genetic factors that contribute to Mtb infection outcomes. However, much of the heritability in TB remains unaccounted for and additional susceptibility loci most likely exist. We perform a multistage genome-wide association study on 2949 pulmonary TB patients and 5090 healthy controls (833 cases and 1220 controls were genome-wi ...[more]

PMID: 30287856

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Project description:BACKGROUND:Pulmonary hypertension (PH) is a rare disease characterized by proliferation and occlusion of small pulmonary arterioles, which has been associated with a high mortality rate. The pathogenesis of PH is complex and incompletely understood, which includes both genetic and environmental factors that alter vascular structure and function. METHODS:Thus we aimed to reveal the potential genetic etiology of PH by targeting 143 tag SNPs of 14 candidate genes. Totally 208 individuals from Chinese Han population were enrolled in the present study, including 109 non-idiopathic PH patients and 99 healthy controls. RESULTS:The data revealed that 2 SNPs were associated with PH overall susceptibility at p?<?3×10-?4 after Bonferroni correction. The top hit was rs6557421 (p?=?4.5×10-?9), located within Nox3 gene on chromosome 6. Another SNP rs3744439 located in Tbx4 gene, also showed evidence of association with PH susceptibility (p?=?1.2×10-?6). The distribution of genotype frequencies of rs6557421 and rs3744439 have dramatic differences between PH patients and controls. Individuals with rs6557421 TT genotype had a 10.72-fold/14.20-fold increased risk to develop PH when compared with GG or GG/GT carriers in codominant or recessive model, respectively (TT versus GG: 95%CI?=?4.79-24.00; TT versus GG/GT: 95%CI?=?6.65-30.33). As for rs3744439, AG genotype only occurred in healthy controls but has not been observed in PH patients. We further validated the result by using 26 different populations from five regions around the globe, including African (AFR), American (AMR), East Asian (EAS), European (EUR), and South Asian (SAS). In consistent with the present case-control study's results, significantly different genotype frequencies of the observed SNPs existed between PH patients and healthy individuals from all over the world. CONCLUSIONS:The results suggested that rs6557421 variant in Nox3 and rs3744439 variant in Tbx4 might have potential effect on individual susceptibility to pulmonary hypertension, which could lead to therapeutic or diagnosis approaches in PH.

Dataset Information

Genome-wide association study identifies two risk loci for tuberculosis in Han Chinese.

Publications

Genome-wide association study identifies two risk loci for tuberculosis in Han Chinese.

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