Nucleotide sequences and modifications that determine RIG-I/RNA binding and signaling activities

D Uzri, L Gehrke - Journal of virology, 2009 - Am Soc Microbiol
D Uzri, L Gehrke
Journal of virology, 2009Am Soc Microbiol
Cytoplasmic viral RNAs with 5′ triphosphates (5′ ppp) are detected by the RNA helicase
RIG-I, initiating downstream signaling and alpha/beta interferon (IFN-α/β) expression that
establish an antiviral state. We demonstrate here that the hepatitis C virus (HCV) 3′
untranslated region (UTR) RNA has greater activity as an immune stimulator than several
flavivirus UTR RNAs. We confirmed that the HCV 3′-UTR poly (U/UC) region is the
determinant for robust activation of RIG-I-mediated innate immune signaling and that its …
Abstract
Cytoplasmic viral RNAs with 5′ triphosphates (5′ppp) are detected by the RNA helicase RIG-I, initiating downstream signaling and alpha/beta interferon (IFN-α/β) expression that establish an antiviral state. We demonstrate here that the hepatitis C virus (HCV) 3′ untranslated region (UTR) RNA has greater activity as an immune stimulator than several flavivirus UTR RNAs. We confirmed that the HCV 3′-UTR poly(U/UC) region is the determinant for robust activation of RIG-I-mediated innate immune signaling and that its antisense sequence, poly(AG/A), is an equivalent RIG-I activator. The poly(U/UC) region of the fulminant HCV JFH-1 strain was a relatively weak activator, while the antisense JFH-1 strain poly(AG/A) RNA was very potent. Poly(U/UC) activity does not require primary nucleotide sequence adjacency to the 5′ppp, suggesting that RIG-I recognizes two independent RNA domains. Whereas poly(U) 50-nt or poly(A) 50-nt sequences were minimally active, inserting a single C or G nucleotide, respectively, into these RNAs increased IFN-β expression. Poly(U/UC) RNAs transcribed in vitro using modified uridine 2′ fluoro or pseudouridine ribonucleotides lacked signaling activity while functioning as competitive inhibitors of RIG-I binding and IFN-β expression. Nucleotide base and ribose modifications that convert activator RNAs into competitive inhibitors of RIG-I signaling may be useful as modulators of RIG-I-mediated innate immune responses and as tools to dissect the RNA binding and conformational events associated with signaling.
American Society for Microbiology