Skip to Main content Skip to Navigation
Journal articles

Influenza virus infection induces widespread alterations of host cell splicing

Abstract : Influenza A viruses (IAVs) use diverse mechanisms to interfere with cellular gene expression. Although many RNA-seq studies have documented IAV-induced changes in host mRNA abundance, few were designed to allow an accurate quantification of changes in host mRNA splicing. Here, we show that IAV infection of human lung cells induces widespread alterations of cellular splicing, with an overall increase in exon inclusion and decrease in intron retention. Over half of the mRNAs that show differential splicing undergo no significant changes in abundance or in their 3 end termination site, suggesting that IAVs can specifically manipulate cellular splicing. Among a randomly selected subset of 21 IAV-sensitive alternative splicing events, most are specific to IAV infection as they are not observed upon infection with VSV, induction of interferon expression or induction of an osmotic stress. Finally, the analysis of splicing changes in RED-depleted cells reveals a limited but significant overlap with the splicing changes in IAV-infected cells. This observation suggests that hijacking of RED by IAVs to promote splicing of the abundant viral NS1 mRNAs could partially divert RED from its target mRNAs. All our RNA-seq datasets and analyses are made accessible for browsing through a user-friendly Shiny interface (http://virhostnet.prabi. fr:3838/shinyapps/flu-splicing or https://github.com/ cbenoitp/flu-splicing).
Complete list of metadata

https://hal.archives-ouvertes.fr/hal-03021806
Contributor : Vincent Lacroix <>
Submitted on : Tuesday, November 24, 2020 - 2:54:34 PM
Last modification on : Wednesday, September 8, 2021 - 3:33:11 AM
Long-term archiving on: : Thursday, February 25, 2021 - 8:15:23 PM

File

lqaa095.pdf
Publisher files allowed on an open archive

Licence


Distributed under a Creative Commons Attribution - NonCommercial 4.0 International License

Identifiers

Citation

Usama Ashraf, Clara Benoit-Pilven, Vincent Navratil, Cécile Ligneau, Guillaume Fournier, et al.. Influenza virus infection induces widespread alterations of host cell splicing. NAR Genomics and Bioinformatics, Oxford University Press, 2020, 2 (4), ⟨10.1093/nargab/lqaa095⟩. ⟨hal-03021806⟩

Share

Metrics

Record views

237

Files downloads

492