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Proteogenomic identification of an immunogenic antigen derived from human endogenous retrovirus in renal cell carcinoma
Shin Kobayashi, Serina Tokita, Keigo Moniwa, Katsuyuki Kitahara, Hiromichi Iuchi, Kazuhiko Matsuo, Hidehiro Kakizaki, Takayuki Kanaseki, Toshihiko Torigoe
Shin Kobayashi, Serina Tokita, Keigo Moniwa, Katsuyuki Kitahara, Hiromichi Iuchi, Kazuhiko Matsuo, Hidehiro Kakizaki, Takayuki Kanaseki, Toshihiko Torigoe
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Research Article Immunology Oncology

Proteogenomic identification of an immunogenic antigen derived from human endogenous retrovirus in renal cell carcinoma

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Abstract

CD8+ T cells can recognize tumor antigens displayed by HLA class I molecules and eliminate tumor cells. Despite their low tumor mutation burden, immune checkpoint blockade (ICB) is often beneficial in patients with renal cell carcinoma (RCC). Here, using a proteogenomic approach, we directly and comprehensively explored the HLA class I–presenting peptidome of RCC tissues and demonstrated that the immunopeptidomes contain a small subset of peptides derived from human endogenous retroviruses (hERV). A comparison between tumor and normal kidney tissues revealed tumor-associated hERV antigens, one of which was immunogenic and recognized by host tumor-infiltrating lymphocytes (TIL). Stimulation with the hERV antigen induced reactive CD8+ T cells in healthy donor–derived (HD-derived) peripheral blood mononuclear cells (PBMC). These results highlight the presence of antitumor CD8+ T cell surveillance against hERV3895 antigens, suggesting their clinical applications in patients with RCC.

Authors

Shin Kobayashi, Serina Tokita, Keigo Moniwa, Katsuyuki Kitahara, Hiromichi Iuchi, Kazuhiko Matsuo, Hidehiro Kakizaki, Takayuki Kanaseki, Toshihiko Torigoe

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Figure 1

Immune profiling of the RCC tissues.

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Immune profiling of the RCC tissues.
(A) Expression of immune-related ge...
(A) Expression of immune-related genes in RCC tissues (RCC17, RCC19, and RCC21). (B) Section of the RCC17 kidney showing tumor (T) and normal (N) lesions sampled and used in this study. The dashed line indicates the capsule surrounding the tumor mass. (C) Comparison of the expression levels of genes related to cytotoxic T cells (top) and costimulatory or immune checkpoint molecules (bottom) between normal and tumor tissues of RCC17. (D) IHC of RCC17 tumor and normal tissues (total original magnification, ×200). (E) Numbers of CD8+ cells per HPF in RCC17, RCC19, and RCC21 tissues. Box-and-whisker plots represent the median (solid bars), interquartile range (boxes), and 1.5× interquartile range (vertical lines). P values were calculated using 2-tailed t test. ***P < 0.001, **P < 0.01.

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