| Literature DB >> 25904605 |
Zhongshan Cheng1, Jie Zhou2, Kelvin Kai-Wang To3, Hin Chu2, Cun Li1, Dong Wang1, Dong Yang1, Shufa Zheng4, Ke Hao5, Yohan Bossé6, Ma'en Obeidat7, Corry-Anke Brandsma8, You-Qiang Song9, Yu Chen4, Bo-Jian Zheng2, Lanjuan Li4, Kwok-Yung Yuen3.
Abstract
The genetic predisposition to severe A(H1N1)2009 (A[H1N1]pdm09) influenza was evaluated in 409 patients, including 162 cases with severe infection and 247 controls with mild infection. We prioritized candidate variants based on the result of a pilot genome-wide association study and a lung expression quantitative trait locus data set. The GG genotype of rs2070788, a higher-expression variant of TMPRSS2, was a risk variant (odds ratio, 2.11; 95% confidence interval, 1.18-3.77; P = .01) to severe A(H1N1)pdm09 influenza. A potentially functional single-nucleotide polymorphism, rs383510, accommodated in a putative regulatory region was identified to tag rs2070788. Luciferase assay results showed the putative regulatory region was a functional element, in which rs383510 regulated TMPRSS2 expression in a genotype-specific manner. Notably, rs2070788 and rs383510 were significantly associated with the susceptibility to A(H7N9) influenza in 102 patients with A(H7N9) influenza and 106 healthy controls. Therefore, we demonstrate that genetic variants with higher TMPRSS2 expression confer higher risk to severe A(H1N1)pdm09 influenza. The same variants also increase susceptibility to human A(H7N9) influenza.Entities:
Keywords: A(H1N1)pdm09 influenza; A(H7N9) influenza; TMPRSS2; genetic variation; lung eQTL
Mesh:
Substances:
Year: 2015 PMID: 25904605 PMCID: PMC7107393 DOI: 10.1093/infdis/jiv246
Source DB: PubMed Journal: J Infect Dis ISSN: 0022-1899 Impact factor: 5.226
Demographic and Clinical Profiles of Patients With Severe Cases and Controls With Mild A(H1N1)pdm09 Infection
| Patient Profile | Patients, No. (%)a |
| |
|---|---|---|---|
| Severe Infection (n = 162)b | Mild Infection (n = 247) | ||
| Demographic characteristic | |||
| Age, median years (interquartile range) | 56 (45–65) | 40 (25–55) | <.001 |
| Female | 64 (39.5) | 142 (57.5) | <.001 |
| Risk conditions | |||
| Age ≥65 y | 43 (26.5) | 35 (14.2) | .003 |
| Pregnancy | 1 (0.6) | 8 (3.2) | .094 |
| Chronic pulmonary disease | 49 (30.2) | 24 (9.7) | <.001 |
| Chronic cardiac disease | 36 (22.2) | 26 (10.5) | .002 |
| Metabolic disorders | 47 (29.0) | 35 (14.2) | <.001 |
| Chronic renal disease | 18 (11.1) | 13 (5.3) | .035 |
| Chronic hepatic disease | 5 (3.1) | 8 (3.2) | >.99 |
| Neurological conditions | 23 (14.2) | 17 (6.9) | .017 |
| Hemoglobinopathy | 1 (0.6) | 2 (0.8) | >.99 |
| Immunosuppression | 23 (14.2) | 40 (16.2) | .675 |
| Obesity | 27 (16.7) | 3 (1.2) | <.001 |
a Data represent No. (%) of patients unless otherwise stated.
b Among patients with severe illness, 26 died.
c The Fisher exact test and Mann–Whitney U test were used for categorical and continuous variables, respectively.
Genetic Association of rs2070788 With Severe A(H1N1)pdm09 Infection
| Variant Distribution and Analysis | Severe Patients | Mild Controls |
|---|---|---|
| (n = 162) | (n = 247) | |
| Genotypic distribution, n (%) | ||
| GG | 30 (18.5) | 24 (9.7) |
| AG | 77 (47.5) | 112 (45.3) |
| AA | 55 (34.0) | 111 (45.0) |
| Allelic analysis (G) | ||
| OR (95% CI) | 1.54 (1.14–2.06) | |
| | .004 | |
| Genotype analysis (GG) | ||
| OR (95% CI) | 2.11 (1.18–3.77) | |
| | .01 | |
| Multivariate analysis (GG) | ||
| OR (95% CI) | 2.15 (1.13–4.09) | |
| | .02 | |
Abbreviations: CI, confidence interval; OR, odds ratio.
Figure 1.Genotype-specific TMPRSS2 expression in human lung tissues. Boxplots show expression of TMPRSS2 corresponding to rs2070788 (left) and rs383510 (right) genotypes. Boxes denote interquartile ranges; thick lines, medians; black dots, means; and open dots, possible outliers. Expression data from the 3 participating centers are shown.
Figure 2.Prioritization of rs383510 as the functional variant for the genetic association. A, The genetic architecture of TMPRSS2 gene. Upper panel shows the chromosomal region that accommodates TMPRSS2 gene in human reference genome assembly 19; middle panel, the regulatory regions (TMPRSS2 Rg) accommodating high–linkage disequilibrium (LD) single-nucleotide polymorphisms (SNPs) in Chinese (Chinese Han in Beijing [CHB]) and Asian (ASN) populations; lower panel, high-LD variants with rs2070788 (underlined). The variants as lung expression quantitative trait loci (eQTLs) are highlighted. Lung eQTL panel shows the locations of eQTLs and P values in −log10 scale; horizontal bar represents the −log10P value of 15. Among all the high-LD SNPs with rs2070788, rs383510 presents as both a potentially regulatory SNP and the strongest lung eQTL. B, A total of 9 putatively functional variants in vicinity of TMPRSS2 gene were applied to LD analysis with association SNP rs2070788, based on genotype data for CHB and ASN populations from the 1000 Genomes Project.
Figure 3.Luciferase activity of the putative enhancer. The putative enhancer region containing rs383510 was inserted in a luciferase reporter vector. Two constructs representing rs383510 genotype TT and genotype CC, as well as unmodified vector pGL3-Basic, were transfected into A549 cells. A Renilla luciferase vector pGL4.70[hRluc] was cotransfected as an internal control, and luciferase assay was performed 32 hours after transfection. The relative luciferase activity (ratio of firefly to Renilla luminescence) is presented as the mean and SD of triplicated transfection in a representative experiment.
Genotypic Distributions of rs2070788 and rs383510 in Patients With Human A(H7N9) Influenza and Healthy Controls
| Variant | Distribution in Patients or Controls, No. (%) | |
|---|---|---|
| Patients With H7N9 Influenza (n = 102) | Healthy Controls (n = 106) | |
| rs2070788 | ||
| GG | 16 (15.7) | 9 (8.5) |
| GA | 51 (50.0) | 43 (40.6) |
| AA | 35 (34.3) | 54 (50.9) |
| Allele frequency (G), % | 40.7 | 28.8 |
| rs383510 | ||
| TT | 14 (13.7) | 7 (6.6) |
| TC | 55 (53.9) | 47 (44.3) |
| CC | 33 (32.4) | 52 (49.1) |
| Allele frequency (T), % | 40.7 | 28.8 |
Genetic Associations of rs2070788 and rs383510 With Susceptibility to Human A(H7N9) Influenza
| Variant and Analysis | OR (95% CI) |
|
|---|---|---|
| rs2070788 | ||
| Allelic model (G) | 1.70 (1.13–2.55) | .01 |
| Dominant model | 1.99 (1.14–3.48) | .02 |
| rs383510 | ||
| Allelic model (T) | 1.70 (1.13–2.55) | .01 |
| Dominant model | 2.01 (1.15–3.54) | .01 |
Abbreviations: CI, confidence interval; OR, odds ratio.