Self-assembling short immunostimulatory duplex RNAs with broad-spectrum antiviral activity

Longlong Si, Haiqing Bai, Crystal Yuri Oh, Amanda Jiang, Fan Hong, Tian Zhang, Yongxin Ye, Tristan X. Jordan, James Logue, Marisa McGrath, Chaitra Belgur, Karina Calderon, Atiq Nurani, Wuji Cao, Kenneth E. Carlson, Rachelle Prantil-Baun, Steven P. Gygi, Dong Yang, Colleen B. Jonsson, Benjamin R. tenOeverMatthew Frieman, Donald E. Ingber

Research output: Contribution to journalArticlepeer-review

1 Scopus citations


The current coronavirus disease 2019 (COVID-19) pandemic highlights the need for broad-spectrum antiviral therapeutics. Here we describe a new class of self-assembling immunostimulatory short duplex RNAs that potently induce production of type I and type III interferon (IFN-I and IFN-III). These RNAs require a minimum of 20 base pairs, lack any sequence or structural characteristics of known immunostimulatory RNAs, and instead require a unique sequence motif (sense strand, 5′-C; antisense strand, 3′-GGG) that mediates end-to-end dimer self-assembly. The presence of terminal hydroxyl or monophosphate groups, blunt or overhanging ends, or terminal RNA or DNA bases did not affect their ability to induce IFN. Unlike previously described immunostimulatory small interfering RNAs (siRNAs), their activity is independent of Toll-like receptor (TLR) 7/8, but requires the RIG-I/IRF3 pathway that induces a more restricted antiviral response with a lower proinflammatory signature compared with immunostimulant poly(I:C). Immune stimulation mediated by these duplex RNAs results in broad-spectrum inhibition of infections by many respiratory viruses with pandemic potential, including severe acute respiratory syndrome coronavirus (SARS-CoV)-2, SARS-CoV, Middle East respiratory syndrome coronavirus (MERS-CoV), human coronavirus (HCoV)-NL63, and influenza A virus in cell lines, human lung chips that mimic organ-level lung pathophysiology, and a mouse SARS-CoV-2 infection model. These short double-stranded RNAs (dsRNAs) can be manufactured easily, and thus potentially could be harnessed to produce broad-spectrum antiviral therapeutics.

Original languageEnglish
Pages (from-to)923-940
Number of pages18
JournalMolecular Therapy - Nucleic Acids
StatePublished - 13 Sep 2022


  • Hoogsteen G-G base pairing
  • MT: Oligonucleotides
  • RIG-I
  • SARS-CoV-2
  • Therapies and Applications
  • antiviral therapeutic
  • immunostimulatory RNA
  • influenza
  • interferon
  • organ on a chip


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