Genetic variants in <i>IFIH1</i> and <i>DDX58</i> influence hepatitis C virus clearance in Chinese Han population

Zhu, Xiaobo; Zhuo, Lingyun; Yue, Ming; Liu, Mei; Zang, Feng; Fan, Haozhi; Wu, Jingjing; Xia, Xueshan; Zhang, A‐Mei; Yu, Rongbin; Huang, Peng

doi:10.1002/jmv.25398

Cited by 5 publications

(3 citation statements)

References 39 publications

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“…Interestingly, a prior study showed that IFIH1 is important for immune responses to Candida fungal infections ( Jaeger et al, 2015 ). In addition, prior studies have associated IFIH1 (rs3747517) and UBE2L3 with an inability to clear hepatitis viruses, leading to chronic infection and increased inflammatory states ( Liu et al, 2018 ; Zhu et al, 2019 ; Yao et al, 2021 ). IFIH1 encodes a retinoic acid-inducible gene I (RIG-I)-like receptor that can sense viral RNA in order to establish a proper antiviral host response.…”

Section: Discussionmentioning

confidence: 99%

A partitioned 88-loci psoriasis genetic risk score reveals HLA and non-HLA contributions to clinical phenotypes in a Newfoundland psoriasis cohort

et al. 2023

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Psoriasis is an immune-mediated inflammatory skin disease typically characterized by erythematous and scaly plaques. It affects 3% of the Newfoundland population while only affecting 1.7% of the general Canadian population. Recent genome-wide association studies (GWAS) in psoriasis have identified more than 63 genetic susceptibility loci that individually have modest effects. Prior studies have shown that a genetic risk score (GRS) combining multiple loci can improve psoriasis disease prediction. However, these prior GRS studies have not fully explored the association of GRS with patient clinical characteristics. In this study, we calculated three types of GRS: one using all known GWAS SNPs (GRS-ALL), one using a subset of SNPs from the HLA region (GRS-HLA), and the last using non-HLA SNPs (GRS-noHLA). We examined the relationship between these GRS and a number of psoriasis features within a well characterized Newfoundland psoriasis cohort. We found that both GRS-ALL and GRS-HLA were significantly associated with early age of psoriasis onset, psoriasis severity, first presentation of psoriasis at the elbow or knee, and the total number of body locations affected, while only GRS-ALL was associated with a positive family history of psoriasis. GRS-noHLA was uniquely associated with genital psoriasis. These findings clarify the relationship of the HLA and non-HLA components of GRS with important clinical features of psoriasis.

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Section: Discussionmentioning

confidence: 99%

A partitioned 88-loci psoriasis genetic risk score reveals HLA and non-HLA contributions to clinical phenotypes in a Newfoundland psoriasis cohort

et al. 2023

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“…There are also correlations with viral infections, such as COVID-19, WNV and EV71. IFIH1 rs9596310 is a risk factor for chronic hepatitis C virus (HCV) infection [ 50 ]. Both EV71 and HCV are positive single-stranded RNA viruses that may cause similar immune responses in the host.…”

Section: Discussionmentioning

confidence: 99%

DNA methylation and single-nucleotide polymorphisms in DDX58 are associated with hand, foot and mouth disease caused by enterovirus 71

Liu

Deng

et al. 2022

PLoS Negl Trop Dis

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Background This research aimed to explore the association between the RIG-I-like receptor (RIG-I and MDA5 encoded by DDX58 and IFIH1, respectively) pathways and the risk or severity of hand, foot, and mouth disease caused by enterovirus 71 (EV71-HFMD). In this context, we explored the influence of gene methylation and polymorphism on EV71-HFMD. Methodology/Principal findings 60 healthy controls and 120 EV71-HFMD patients, including 60 mild EV71-HFMD and 60 severe EV71-HFMD patients, were enrolled. First, MiSeq was performed to explore the methylation of CpG islands in the DDX58 and IFIH1 promoter regions. Then, DDX58 and IFIH1 expression were detected in PBMCs using RT-qPCR. Finally, imLDR was used to detect DDX58 and IFIH1 single-nucleotide polymorphism (SNP) genotypes. Severe EV71-HFMD patients exhibited higher DDX58 promoter methylation levels than healthy controls and mild EV71-HFMD patients. DDX58 promoter methylation was significantly associated with severe HFMD, sex, vomiting, high fever, neutrophil abundance, and lymphocyte abundance. DDX58 expression levels were significantly lower in mild patients than in healthy controls and lower in severe patients than in mild patients. Binary logistic regression analysis revealed statistically significant differences in the genotype frequencies of DDX58 rs3739674 between the mild and severe groups. GeneMANIA revealed that 19 proteins displayed correlations with DDX58, including DHX58, HERC5, MAVS, RAI14, WRNIP1 and ISG15, and 19 proteins displayed correlations with IFIH1, including TKFC, IDE, MAVS, DHX58, NLRC5, TSPAN6, USP3 and DDX58. Conclusions/Significance DDX58 expression and promoter methylation were associated with EV71 infection progression, especially in severe EV71-HFMD patients. The effect of DDX58 in EV71-HFMD is worth further attention.

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“…In the present study, rs3747517 (H843R), another SNP found in the IFIH1 gene, is a missense variant located at exon 13 of IFIH1 . 42 In humans, the variant of the IFIH1 gene that encodes the H843R polymorphism has been associated with different susceptibilities to multiple viral infections and autoimmune diseases, such as type I diabetes mellitus (T1DM), 43 chronic viral hepatitis, 44 systemic lupus erythematosus, 45 and psoriatic arthritis. 46 In the present study, significant associations were observed between IFIH1 H843R alleles and vitiligo susceptibility.…”

Section: Discussionmentioning

confidence: 99%

Association Among MIF, IFIH1, and IL6 Gene Polymorphisms and Non-Segmental Vitiligo in a Chinese Han Population

Wang¹,

Min²,

Lin³

et al. 2022

CCID

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Objective The aim of the present study was to investigate the association of single-nucleotide polymorphisms (SNPs) in the macrophage migration inhibiting factor ( MIF ), interferon-induced Helicase C domain 1 ( IFIH1 ), interleukin-6 ( IL6 ) genes, circulating levels with non-segmental vitiligo (NSV) susceptibility in the Chinese population, and to analyze the relationships between gene polymorphisms and clinical characteristics of vitiligo. Methods In this study, genotyping was conducted in 155 patients with NSV and 117 unaffected controls using polymerase chain reaction and snapshot technique. Serum concentrations were determined by ELISA kit. Results There were strong associations between IFIH1 H843R and IL6 -572G/C polymorphisms and NSV susceptibility ( p = 0.013; p = 0.009). In contrast to previous studies, we found no significant difference in the MIF -173G/C polymorphism between the two groups. In addition, the frequency of allelic distribution for MIF -173G/C in patients with active NSV was significantly higher than stable NSV ( p = 0.011), and IFIH1 H843R with early-onset (≤ 20), active or family history of NSV was significantly higher than late-onset (> 20), stable or no family history of NSV ( p = 0.033; p = 0.045; p = 0.039). Serum concentrations of MIF were higher in patients with active NSV, serum IFIH1 and IL6 concentrations were related to the presence of polymorphisms in patients with NSV ( p = 0.009; p = 0.011). Conclusion Our results suggested that IFIH1 H843R and IL6 -572G/C gene polymorphisms and expression levels are obviously correlated with the onset of NSV. MIF -173G/C allele and serum concentrations may be associated with active NSV, and IFIH1 H843R allele may be associated with youth, active or family history of NSV.

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Genetic variants in IFIH1 and DDX58 influence hepatitis C virus clearance in Chinese Han population

Cited by 5 publications

References 39 publications

A partitioned 88-loci psoriasis genetic risk score reveals HLA and non-HLA contributions to clinical phenotypes in a Newfoundland psoriasis cohort

A partitioned 88-loci psoriasis genetic risk score reveals HLA and non-HLA contributions to clinical phenotypes in a Newfoundland psoriasis cohort

DNA methylation and single-nucleotide polymorphisms in DDX58 are associated with hand, foot and mouth disease caused by enterovirus 71

Association Among MIF, IFIH1, and IL6 Gene Polymorphisms and Non-Segmental Vitiligo in a Chinese Han Population

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