T cells mediate adaptive immunity in diverse anatomic compartments through recognition of specific antigens via unique T cell receptor (TCR) structures. However, little is known about the spatial distribution of an organism’s TCR repertoire. Here, using high-throughput TCR sequencing (TCRseq), we investigated the TCR repertoires of sixteen tissues in healthy C57B/L6 mice. We found that TCR repertoires generally classified into three categories (lymph nodes, non-lymph node tissues and small intestine) based on sequence similarity. Clonal distribution and diversity analyses showed that small intestine compartment had a more skewed repertoire as compared to lymph nodes and non-lymph node tissues. However, analysis of TRBV and TRBJ gene usage across tissue compartments, as well as comparison of CDR3 length distributions, showed no significant tissue-dependent differences. Interestingly, analysis of clonotype sharing between mice showed that although non-redundant public clonotypes were found more easily in lymph nodes, small intestinal CD4 + T cells harbored more abundant public clonotypes. These findings under healthy physiological conditions offer an important reference dataset, which may contribute to our ability to better manipulate T cell responses against infection and vaccination.

T 细胞通过独特的 T 细胞受体 (TCR) 结构识别特定抗原，从而在不同的解剖区室中介导适应性免疫。然而，对生物体 TCR 库的空间分布知之甚少。在这里，我们使用高通量 TCR 测序 (TCRseq)，研究了健康 C57B/L6 小鼠中 16 种组织的 TCR 库。我们发现 TCR 库通常根据序列相似性分为三类（淋巴结、非淋巴结组织和小肠）。克隆分布和多样性分析表明，与淋巴结和非淋巴结组织相比，小肠隔室具有更倾斜的曲目。然而，TRBV和TRBJ的分析跨组织区室的基因使用，以及 CDR3 长度分布的比较，没有显示出显着的组织依赖性差异。有趣的是，对小鼠之间克隆型共享的分析表明，虽然在淋巴结中更容易发现非冗余公共克隆型，但小肠 CD4 + T 细胞具有更丰富的公共克隆型。这些在健康生理条件下的发现提供了一个重要的参考数据集，这可能有助于我们更好地操纵 T 细胞对感染和疫苗接种的反应。