Virolainen et al., The American Journal of Human Genetics - A lupus signal on chromosome 11p15 narrows to a coding haplotype in IRF7 that most people in the world carry. This study shows the risk form moves into the nucleus more readily, binds DNA more tightly and shifts its sequence preference, raising interferon-alpha output, and that mice engineered with the equivalent change clear a respiratory virus better while producing more anti-DNA autoantibodies. The same change buys antiviral protection and costs autoreactivity. Key terms: systemic lupus erythematosus, IRF7, type I interferon, evolutionary trade-off, fine mapping.

Study Highlights:
Fine mapping across ancestries placed the lupus association at 11p15 on a common coding IRF7 haplotype tagged by rs1131665 (p.Gln412Arg), with odds ratios of 1.20 in European and 1.15 in African ancestry cohorts and 1.18 in the trans-ancestral meta-analysis. The risk allele is carried by most of the world, reaching 98% in East Asian ancestry and 42% in African ancestry datasets, and ancient DNA spanning more than 40,000 years shows it was already common well before the recorded epidemics the authors examined. In cells the risk form increased IRF7 nuclear localization, strengthened DNA binding and altered its sequence specificity, raising interferon-alpha after stimulation of pattern recognition receptors in monocytes and airway epithelial cells. Mice carrying the analogous CRISPR-engineered Arg334Gln change in Irf7 had lower lung viral titers after intranasal vesicular stomatitis virus and produced significantly more anti-dsDNA autoantibodies than mice with the protective form. The authors read this as an evolutionary trade-off, in which the same gain in interferon output buys innate antiviral control at the price of autoreactivity.

Conclusion:
A coding haplotype in IRF7 that a majority of people carry tunes interferon-alpha upward, and that single setting produces both better early control of viral infection and a higher tendency to autoantibody production. Reading lupus risk at this locus as the cost of an antiviral advantage helps explain why such a variant stayed common, and it places interferon-directed therapy in a context where the same pathway is doing useful work.

Music:
Enjoy the music based on this article at the end of the episode.

Article title:
A highly prevalent lupus risk haplotype increases IRF7-dependent induction of IFN-α, enhancing antiviral defense and exacerbating autoimmunity

First author:
Virolainen

Journal:
The American Journal of Human Genetics

DOI:
10.1016/j.ajhg.2026.08.016

Reference:
Virolainen, S.J., Creighton, K., Dashtiahangar, M., et al., Waggoner, S.N., Weirauch, M.T., and Kottyan, L.C. (2026). A highly prevalent lupus risk haplotype increases IRF7-dependent induction of IFN-α, enhancing antiviral defense and exacerbating autoimmunity. The American Journal of Human Genetics 113, 1-22. https://doi.org/10.1016/j.ajhg.2026.08.016

License:
This episode is based on an open-access article published under the Creative Commons Attribution 4.0 International License (CC BY 4.0) – https://creativecommons.org/licenses/by/4.0/

Support:
Base by Base is independent and ad-free — no sponsors, no paywall. If an episode was worth your time, chip in and keep the papers audited and the original songs coming:
❤️ Support monthly: https://buy.stripe.com/cNifZhclVebvagk2JDgEg01
☕ One-time donation: https://donate.stripe.com/7sY4gz71B2sN3RWac5gEg00
▶️ Watch with chapters on YouTube: https://www.youtube.com/@basebybase
More at basebybase.com

On PaperCast Base by Base you'll discover the latest in genomics, functional genomics, structural genomics, and proteomics.

Episode link: https://basebybase.com/episodes/irf7-lupus-haplotype-interferon-antiviral-tradeoff

QC:
This episode was checked against the o...