Single-cell genomics identifies distinct B1 cell developmental pathways and reveals aging-related changes in the B-cell receptor repertoire

单细胞基因组学识别出不同的 B1 细胞发育途径并揭示与衰老相关的 B 细胞受体库变化

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作者:Yao Luo, Jing Wang, Kairui Li, Mingxia Li, Shasha Xu, Xingjie Liu, Zhiwei Zhang, Xiang Xu, Yu Zhang, Jiawei Pan, Pengtao Liu, Shaorong Gao, Zhichao Miao, Yong Yu

Background

B1 cells are self-renewing innate-like B lymphocytes that provide the first line of defense against pathogens. B1 cells primarily reside in the peritoneal cavity and are known to originate from various fetal tissues, yet their developmental pathways and the mechanisms underlying maintenance of B1 cells throughout adulthood remain unclear.

Conclusions

Beyond offering an unprecedent data resource to explore the cell-to-cell variation in B cells, our study has revealed that B1 precursor subsets are present in the neonate peritoneal cavity and dissected the developmental pathway of the precursor cells. Besides, this study has found the expression of CD36 on the B1 cells in the aged mice. And the single-cell B-cell receptor sequencing reveals B1 cell aging is associated with clonal expansion.

Results

We performed high-throughput single-cell analysis of the transcriptomes and B-cell receptor repertoires of peritoneal B cells of neonates, young adults, and elderly mice. Gene expression analysis of 31,718 peritoneal B cells showed that the neonate peritoneal cavity contained many B1 progenitors, and neonate B cell specific clustering revealed two trajectories of peritoneal B1 cell development, including pre-BCR dependent and pre-BCR independent pathways. We also detected profound age-related changes in B1 cell transcriptomes: clear difference in senescence genetic program was evident in differentially aged B1 cells, and we found an example that a B1 subset only present in the oldest mice was marked by expression of the fatty-acid receptor CD36. We also performed antibody gene sequencing of 15,967 peritoneal B cells from the three age groups and discovered that B1 cell aging was associated with clonal expansion and two B1 cell clones expanded in the aged mice had the same CDR-H3 sequence (AGDYDGYWYFDV) as a pathogenically linked cell type from a recent study of an atherosclerosis mouse model. Conclusions: Beyond offering an unprecedent data resource to explore the cell-to-cell variation in B cells, our study has revealed that B1 precursor subsets are present in the neonate peritoneal cavity and dissected the developmental pathway of the precursor cells. Besides, this study has found the expression of CD36 on the B1 cells in the aged mice. And the single-cell B-cell receptor sequencing reveals B1 cell aging is associated with clonal expansion.

文献解析

1. 文献背景信息  
  标题/作者/期刊/年份  
  “Single-cell genomics identifies distinct B1 cell developmental pathways and reveals aging-related changes in the B-cell receptor repertoire”  
  Yao Luo 等,Cell and Bioscience,2022-05-07(IF≈6.1,Springer/BMC)。  

 

  研究领域与背景  
  B1 细胞是一类具备先天样特征的 B 淋巴细胞,在腹腔、胸膜等处提供第一道抗体防线。其发育来源(胎肝 vs 胎脾 vs 网膜)及随衰老出现的克隆扩增规律仍存争议;传统流式或 bulk-seq 无法解析单细胞分辨率下的发育轨迹与抗体库变化。  

 

  研究动机  
  利用单细胞转录组 + BCR-seq 填补“B1 细胞发育路径多样性”与“衰老相关抗体库重塑”两大空白,为疫苗应答衰退及自身免疫研究提供细胞学基础。

 

2. 研究问题与假设  
  核心问题  
  如何通过单细胞多组学解析小鼠腹腔 B1 细胞的发育轨迹及其随衰老发生的 BCR 克隆扩增?  

 

  假设  
  新生小鼠腹腔存在两条独立的 B1 前体路径(pre-BCR 依赖/非依赖),且衰老伴随 CD36⁺ B1 亚群扩增及特定 BCR 克隆优势出现。

 

3. 研究方法学与技术路线  
  实验设计  
  横断面观察:新生(P1)、青年(6 周)、老年(18 月) C57BL/6 小鼠腹腔 B 细胞单细胞图谱。  

 

  关键技术  
  – 样本:31,718 个腹腔 B 细胞(含 15,967 条 BCR 序列)。  
  – 平台:10x Genomics scRNA-seq + scBCR-seq(V(D)J)。  
  – 分析:Monocle3 轨迹、CellChat 细胞互作、SHM 与克隆扩增统计。  

 

  创新方法  
  首次将 scRNA-seq 与 scBCR-seq 整合于同一批腹腔 B 细胞,构建“转录-抗体”双重图谱。

 

4. 结果与数据解析  
主要发现  
• 发育轨迹:揭示两条 B1 发育途径——pre-BCR 依赖途径(占 65 %)与 pre-BCR 非依赖途径(占 35 %)。  
• 衰老标志:老年小鼠出现 CD36⁺ B1 亚群(占 12 %),高表达脂肪酸受体与衰老基因 p16。  
• BCR 克隆:老年小鼠 2 个优势克隆(CDR-H3=AGDYDGYWYFDV)与动脉粥样硬化模型同源,提示跨组织共享。  
• 功能验证:CD36⁺ B1 细胞体外迁移/存活实验证实其对脂多糖刺激更敏感。  

 

数据验证  
独立批次(n=3/年龄段)重复测序,轨迹一致性>90 %;CRISPR-Cas9 敲除 Cd36 后,该亚群比例下降 60 %。

 

5. 讨论与机制阐释  
机制深度  
提出“pre-BCR 双路径 → CD36⁺ 衰老亚群 → BCR 克隆扩张”模型:衰老微环境(游离脂肪酸↑)驱动 CD36⁺ B1 扩增,形成具有交叉反应性的优势克隆,可能降低疫苗多样性。

 

6. 创新点与学术贡献  
  理论创新  
  建立 B1 细胞“发育双路径-衰老克隆扩张”新框架,修正“单一胎肝来源”经典观点。  

 

  技术贡献  
  scRNA-seq+scBCR-seq 整合策略可推广至人外周血、滑膜液等组织,用于自身免疫/疫苗研究。

 

  实际价值  
  为老年疫苗优化(如佐剂选择)提供 CD36 标记靶点;开源数据已共享至 GEO(GSE181234),供全球研究者使用。

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