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Cited by 176interferon and immune responsesEvolution and Genetic DynamicsGenetic diversity and population structure

Evolutionary genetic dissection of human interferons

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Manry, Jérémy, Laval, Guillaume, Patin, Etienne, Fornarino, Simona, Itan, Yuval, Fumagalli, Matteo, Sironi, Manuela, Tichit, Magali +4 more·2011·Journal of Experimental Medicine
DOI 10.1084/jem.20111680PMC PMC3244034
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Abstract

Interferons (IFNs) are cytokines that play a key role in innate and adaptive immune responses. Despite the large number of immunological studies of these molecules, the relative contributions of the numerous IFNs to human survival remain largely unknown. Here, we evaluated the extent to which natural selection has targeted the human IFNs and their receptors, to provide insight into the mechanisms that govern host defense in the natural setting. We found that some IFN-α subtypes, such as IFN-α6, IFN-α8, IFN-α13, and IFN-α14, as well as the type II IFN-γ, have evolved under strong purifying selection, attesting to their essential and nonredundant function in immunity to infection. Conversely, selective constraints have been relaxed for other type I IFNs, particularly for IFN-α10 and IFN-ε, which have accumulated missense or nonsense mutations at high frequencies within the population, suggesting redundancy in host defense. Finally, type III IFNs display geographically restricted signatures of positive selection in European and Asian populations, indicating that genetic variation at these genes has conferred a selective advantage to the host, most likely by increasing resistance to viral infection. Our population genetic analyses show that IFNs differ widely in their biological relevance, and highlight evolutionarily important determinants of host immune responsiveness.

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  • The decrease in wide footprints is consistent with the known downregulation of type I IFN response after activation.

    “consistent with the known downregulation of type I IFN response after activation46.”

    From Single-molecule states link transcription factor binding to gene expression (2024) · cites this paper as [46]

    The Discussion addresses variation in type I interferon production and proposes that different subtypes may regulate overall activity, but it does not describe downregulation of the type I IFN response after activation. Searches for that phrase and for post-activation attenuation or negative feedback found no passage addressing the claimed timing or direction of change. No page number is available in our copy. (LLM, conf=0.72)

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Authors
Manry, J., Laval, G., Patin, E., Fornarino, S., Itan, Y., Fumagalli, M., Sironi, M., Tichit, M., Bouchier, C., Casanova, J.-L., Barreiro, L. B., & Quintana-Murci, L.
Affiliations
  • Centre National de la Recherche Scientifique (FR)
  • Unit of Human Evolutionary Genetics, Department of Genomes and Genetics, Institut Pasteur, F-75015 Paris, France 1
  • Rockefeller University (US)
  • IRCCS Eugenio Medea (IT)
  • Institut Pasteur (FR)
  • Université de Montréal (CA)
ORCID
Venue
Journal of Experimental Medicine
Publisher
Rockefeller University Press
Published
2011-12-12
Volume
208
Issue
13
Pages
2747-2759
ISSN
  • 0022-1007 (ISSN-L)
  • 1540-9538
DOI
10.1084/jem.20111680
PMC
PMC3244034
OpenAlex
W2130320029
Cited by
176
References
5
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FWCI
5.16
Type
journal article
Language
en
Open access
Locations
  • The Journal of Experimental Medicine (publishedVersion)
  • Europe PMC (PubMed Central) (publishedVersion, cc-by-nc-sa)
  • PubMed Central (publishedVersion, cc-by-nc-sa)
  • PubMed (publishedVersion)
  • BOA (University of Milano-Bicocca) (submittedVersion, other-oa)
  • UCL Discovery (University College London) (submittedVersion)
Funders
  • Agence Nationale de la Recherche (ANR-08-MIEN-0009, 009-01)
  • École Polytechnique Fédérale de Lausanne
  • Fondation pour la Recherche Médicale
  • Centre National de la Recherche Scientifique
Topics
  • Life Sciences › Immunology and Microbiology › Immunology › interferon and immune responses
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Evolution and Genetic Dynamics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic diversity and population structure
Keywords
interferon, interferon receptor, natural selection, purifying selection, positive selection, type I interferon, interferon-gamma, interferon lambda, missense mutations, nonsense mutation, viral infection resistance, host defense, immune system evolution, population genetic variation
MeSH terms
Female, Humans, Interferons, Male, Selection, Genetic, Virus Diseases, Codon, Nonsense, Evolution, Molecular, Mutation, Missense

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

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