Department of Biostatistics and Bioinformatics, Roswell Park Comprehensive Cancer Center, Buffalo, NY, 14263, USA.
Center for Immunotherapy, Roswell Park Comprehensive Cancer Center, Buffalo, NY, 14263, USA.
J Immunother Cancer. 2019 Jun 20;7(1):156. doi: 10.1186/s40425-019-0629-6.
BACKGROUND: Efficient identification of neoantigen-specific T-cell responses in epithelial ovarian cancer (EOC) remains a challenge. Existing investigations of spontaneous T-cell response to tumor neoepitope in EOC have taken the approach of comprehensive screening all neoantigen candidates, with a validation rate of 0.5-2%. METHODS: Whole-exome and transcriptome sequencing analysis of treatment-naive EOC patients were performed to identify neoantigen candidates, and the immunogenicity of prioritized neoantigens was evaluated by analyzing spontaneous neoantigen-specfic CD4 and CD8 T-cell responses in the tumor and/or peripheral blood. The biological relevance of neoantigen-specific T-cell lines and clones were analyzed by evaluating the capacity of autologous ovarian tumor recognition. Genetic transfer of T-cell receptor (TCR) from these neoantigen-specific T-cell clones into peripheral blood T-cells was conducted to generate neoepitope-specific T-cells. The molecular signature associated with positive neoantigen T-cell responses was investigated, and the impacts of expression level and lymphocyte source on neoantigen identification were explored. RESULTS: Using a small subset of prioritized neoantigen candidates, we were able to detect spontaneous CD4 and/or CD8 T-cell responses against neoepitopes from autologous lymphocytes in half of treatment-naïve EOC patients, with a significantly improved validation rate of 19%. Tumors from patients exhibiting neoantigen-specific T-cell responses exhibited a signature of upregulated antigen processing and presentation machinery, which was also associated with favorable patient survival in the TCGA ovarian cohort. T-cells specific against two mutated cancer-associated genes, NUP214 and JAK1, recognized autologous tumors. Gene-engineering with TCR from these neoantigen-specific T-cell clones conferred neoantigen-reactivity to peripheral T-cells. CONCLUSIONS: Our study demonstrated the feasibility of efficiently identifying both CD4 and CD8 neoantigen-specific T-cells in EOC. Autologous lymphocytes genetically engineered with tumor antigen-specific TCR can be used to generate cells for use in the personalized adoptive T-cell transfer immunotherapy.
背景:高效鉴定上皮性卵巢癌(EOC)中的肿瘤新抗原特异性 T 细胞反应仍然是一个挑战。现有的 EOC 肿瘤新抗原自发 T 细胞反应研究采用全面筛选所有新抗原候选物的方法,验证率为 0.5-2%。
方法:对未经治疗的 EOC 患者进行全外显子组和转录组测序分析,以鉴定新抗原候选物,并通过分析肿瘤和/或外周血中优先新抗原特异性 CD4 和 CD8 T 细胞反应来评估优先新抗原的免疫原性。通过评估自体卵巢肿瘤识别能力来分析新抗原特异性 T 细胞系和克隆的生物学相关性。将这些新抗原特异性 T 细胞克隆的 T 细胞受体(TCR)从遗传上转移到外周血 T 细胞中,以产生新表位特异性 T 细胞。研究了与新抗原 T 细胞反应阳性相关的分子特征,并探讨了表达水平和淋巴细胞来源对新抗原鉴定的影响。
结果:使用一小部分优先新抗原候选物,我们能够在一半未经治疗的 EOC 患者的自体淋巴细胞中检测到针对新表位的自发 CD4 和/或 CD8 T 细胞反应,验证率显著提高到 19%。表现出新抗原特异性 T 细胞反应的肿瘤表现出抗原加工和呈递机制上调的特征,这也与 TCGA 卵巢队列中患者的良好生存相关。针对两个突变的癌症相关基因 NUP214 和 JAK1 的 T 细胞识别自体肿瘤。用这些新抗原特异性 T 细胞克隆的 TCR 基因工程赋予外周 T 细胞新抗原反应性。
结论:本研究证明了在上皮性卵巢癌中高效鉴定 CD4 和 CD8 新抗原特异性 T 细胞的可行性。用肿瘤抗原特异性 TCR 基因工程改造的自体淋巴细胞可用于生成用于个性化过继性 T 细胞转移免疫治疗的细胞。
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