RNAseq expression analysis of resistant and susceptible mice after influenza A virus infection identifies novel genes associated with virus replication and important for host resistance to infection

BMC Genomics
Esther WilkKlaus Schughart

Abstract

The host response to influenza A infections is strongly influenced by host genetic factors. Animal models of genetically diverse mouse strains are well suited to identify host genes involved in severe pathology, viral replication and immune responses. Here, we have utilized a dual RNAseq approach that allowed us to investigate both viral and host gene expression in the same individual mouse after H1N1 infection. We performed a detailed expression analysis to identify (i) correlations between changes in expression of host and virus genes, (ii) host genes involved in viral replication, and (iii) genes showing differential expression between two mouse strains that strongly differ in resistance to influenza infections. These genes may be key players involved in regulating the differences in pathogenesis and host defense mechanisms after influenza A infections. Expression levels of influenza segments correlated well with the viral load and may thus be used as surrogates for conventional viral load measurements. Furthermore, we investigated the functional role of two genes, Reg3g and Irf7, in knock-out mice and found that deletion of the Irf7 gene renders the host highly susceptible to H1N1 infection. Using RNAseq analysis we identif...Continue Reading

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Citations

Jan 14, 2016·Current Opinion in Immunology·Michael J CiancanelliJean-Laurent Casanova
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Nov 20, 2020·Emerging Topics in Life Sciences·Matloob Husain

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Datasets Mentioned

BETA
GSE10246
GSE66040

Methods Mentioned

BETA
RNAseq
two-hybrid
Genotyping
chip
PCR

Software Mentioned

LIMMA
R
DESeq
R package ‘ corrgram ’
DESeq2
LifeScope
R package clusterProfiler

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