Viral unmasking of cellular 5S rRNA pseudogene transcripts induces RIG-I-mediated immunity

Nat Immunol. 2018 Jan;19(1):53-62. doi: 10.1038/s41590-017-0005-y. Epub 2017 Nov 27.

Abstract

The sensor RIG-I detects double-stranded RNA derived from RNA viruses. Although RIG-I is also known to have a role in the antiviral response to DNA viruses, physiological RNA species recognized by RIG-I during infection with a DNA virus are largely unknown. Using next-generation RNA sequencing (RNAseq), we found that host-derived RNAs, most prominently 5S ribosomal RNA pseudogene 141 (RNA5SP141), bound to RIG-I during infection with herpes simplex virus 1 (HSV-1). Infection with HSV-1 induced relocalization of RNA5SP141 from the nucleus to the cytoplasm, and virus-induced shutoff of host protein synthesis downregulated the abundance of RNA5SP141-interacting proteins, which allowed RNA5SP141 to bind RIG-I and induce the expression of type I interferons. Silencing of RNA5SP141 strongly dampened the antiviral response to HSV-1 and the related virus Epstein-Barr virus (EBV), as well as influenza A virus (IAV). Our findings reveal that antiviral immunity can be triggered by host RNAs that are unshielded following depletion of their respective binding proteins by the virus.

MeSH terms

  • Animals
  • Cells, Cultured
  • Chlorocebus aethiops
  • DEAD Box Protein 58 / immunology*
  • DEAD Box Protein 58 / metabolism
  • Gene Expression / immunology
  • HEK293 Cells
  • Herpesvirus 1, Human / immunology*
  • Herpesvirus 1, Human / physiology
  • Host-Pathogen Interactions / immunology
  • Humans
  • Immunity / immunology*
  • Interferon Type I / genetics
  • Interferon Type I / immunology
  • Interferon Type I / metabolism
  • Mice, Knockout
  • Pseudogenes / genetics
  • RNA Transport / immunology
  • RNA, Ribosomal, 5S / genetics
  • RNA, Ribosomal, 5S / immunology*
  • RNA, Ribosomal, 5S / metabolism
  • Receptors, Immunologic
  • Vero Cells

Substances

  • Interferon Type I
  • RNA, Ribosomal, 5S
  • Receptors, Immunologic
  • RIGI protein, human
  • DEAD Box Protein 58