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Quantification of epitope abundance reveals the effect of direct and cross-presentation on influenza CTL responses

Author

Listed:
  • Ting Wu

    (Monash University)

  • Jing Guan

    (Monash University)

  • Andreas Handel

    (University of Georgia)

  • David C. Tscharke

    (The Australian National University)

  • John Sidney

    (La Jolla Institute for Allergy and Immunology)

  • Alessandro Sette

    (La Jolla Institute for Allergy and Immunology
    University of California San Diego)

  • Linda M. Wakim

    (University of Melbourne)

  • Xavier Y. X. Sng

    (Monash University)

  • Paul G. Thomas

    (St Jude Children’s Research Hospital)

  • Nathan P. Croft

    (Monash University)

  • Anthony W. Purcell

    (Monash University)

  • Nicole L. La Gruta

    (Monash University
    University of Melbourne)

Abstract

The magnitude of T cell responses to infection is a function of the naïve T cell repertoire combined with the context and duration of antigen presentation. Using mass spectrometry, we identify and quantify 21 class 1 MHC-restricted influenza A virus (IAV)-peptides following either direct or cross-presentation. All these peptides, including seven novel epitopes, elicit T cell responses in infected C57BL/6 mice. Directly presented IAV epitopes maintain their relative abundance across distinct cell types and reveal a broad range of epitope abundances. In contrast, cross-presented epitopes are more uniform in abundance. We observe a clear disparity in the abundance of the two key immunodominant IAV antigens, wherein direct infection drives optimal nucleoprotein (NP)366–374 presentation, while cross-presentation is optimal for acid polymerase (PA)224–233 presentation. The study demonstrates how assessment of epitope abundance in both modes of antigen presentation is necessary to fully understand the immunogenicity and response magnitude to T cell epitopes.

Suggested Citation

  • Ting Wu & Jing Guan & Andreas Handel & David C. Tscharke & John Sidney & Alessandro Sette & Linda M. Wakim & Xavier Y. X. Sng & Paul G. Thomas & Nathan P. Croft & Anthony W. Purcell & Nicole L. La Gru, 2019. "Quantification of epitope abundance reveals the effect of direct and cross-presentation on influenza CTL responses," Nature Communications, Nature, vol. 10(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-019-10661-8
    DOI: 10.1038/s41467-019-10661-8
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