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research article

Inborn errors of type I interferon immunity in patients with symptomatic acute hepatitis E

Saadat, Ali  
•
Gouttenoire, Jerome
•
Ripellino, Paolo
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December 8, 2023
Hepatology

Background and Aims:The clinical spectrum of human infection by HEV ranges from asymptomatic to severe acute hepatitis. Furthermore, HEV can cause diverse neurological manifestations, especially Parsonage-Turner syndrome. Here, we used a large-scale human genomic approach to search for genetic determinants of severe clinical presentations of HEV infection. Approach and Results:We performed whole genome sequencing in 3 groups of study participants with PCR-proven acute HEV infection: (1) 24 patients with symptomatic acute hepatitis E; (2) 12 patients with HEV-associated Parsonage-Turner syndrome; and (3) 16 asymptomatic blood donors (controls). For variant calling and annotation, we used GATK4 best practices followed by Variant Effect Predictor (VEP) and Annovar. For variant classification, we implemented the American College of Medical Genetics and Genomics/Association for Molecular Pathology Bayesian classification framework in R. Variants with a probability of pathogenicity >0.9 were considered damaging. We used all genes with at least 1 damaging variant as input for pathway enrichment analyses.We observed a significant enrichment of type I interferon response pathways in the symptomatic hepatitis group: 10 out of 24 patients carried a damaging variant in one of 9 genes encoding either intracellular viral sensors (IFIH1, DDX58, TLR3, POLR3B, POLR3C) or other molecules involved in type I interferon response [interferon regulatory factor 7 (IRF7), MYD88, OAS3, GAPDH]. We did not find any enriched pathway in the Parsonage-Turner syndrome group or in the controls. Approach and Results:We performed whole genome sequencing in 3 groups of study participants with PCR-proven acute HEV infection: (1) 24 patients with symptomatic acute hepatitis E; (2) 12 patients with HEV-associated Parsonage-Turner syndrome; and (3) 16 asymptomatic blood donors (controls). For variant calling and annotation, we used GATK4 best practices followed by Variant Effect Predictor (VEP) and Annovar. For variant classification, we implemented the American College of Medical Genetics and Genomics/Association for Molecular Pathology Bayesian classification framework in R. Variants with a probability of pathogenicity >0.9 were considered damaging. We used all genes with at least 1 damaging variant as input for pathway enrichment analyses.We observed a significant enrichment of type I interferon response pathways in the symptomatic hepatitis group: 10 out of 24 patients carried a damaging variant in one of 9 genes encoding either intracellular viral sensors (IFIH1, DDX58, TLR3, POLR3B, POLR3C) or other molecules involved in type I interferon response [interferon regulatory factor 7 (IRF7), MYD88, OAS3, GAPDH]. We did not find any enriched pathway in the Parsonage-Turner syndrome group or in the controls. Conclusions:Our results highlight the essential role of type I interferon in preventing symptomatic acute hepatitis E.

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Type
research article
DOI
10.1097/HEP.0000000000000701
Web of Science ID

WOS:001183039600001

Author(s)
Saadat, Ali  
•
Gouttenoire, Jerome
•
Ripellino, Paolo
•
Semela, David
•
Amar, Soraya
•
Frey, Beat M.
•
Fontana, Stefano
•
Mdawar-Bailly, Elise
•
Moradpour, Darius
•
Fellay, Jacques  
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Date Issued

2023-12-08

Publisher

Lippincott Williams & Wilkins

Published in
Hepatology
Subjects

Life Sciences & Biomedicine

•

E Virus

•

Apolipoprotein-E

•

Rig-I

•

Infections

•

Gene

•

Dna

Peer reviewed

REVIEWED

Written at

EPFL

EPFL units
GR-FE  
FunderGrant Number

The "Bourse Pro-Femmes" of the Faculty of Biology and Medicine of the University of Lausanne

Swiss National Science Foundation

CRSK-3_190706

Available on Infoscience
April 3, 2024
Use this identifier to reference this record
https://infoscience.epfl.ch/handle/20.500.14299/206911
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