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单细胞测序解析分泌型磷蛋白 1 在肝纤维化中的作用
作者: style="font-size: 12px ">杨雪亮 1 孙阳阳 2 刘惟曦 3 廖侠 1 陈云茹 3 李建州 3 蔺淑梅 3 刘小静 3 
单位:1. 西安交通大学第一附属医院 临床营养科 陕西 西安 710061 2. 中国人民解放军96604 部队医院 甘肃 兰州 730031 3. 西安交通大学第一附属医院 感染科 陕西 西安 710061 
关键词:肝纤维化 分泌型磷蛋白 1 肝细胞 肝星状细胞 肝窦内皮细胞 
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出版年,卷(期):页码:2026,18(2):60-72
摘要:

 摘要:目的 探究肝纤维化进程中肝细胞与肝非实质细胞 [ 肝星状细胞(hepatic stellate cell,HSC)、肝窦内皮细胞(liver sinusoidal endothelial cell,LSEC)] 的异质性,以及分泌型磷蛋白 1(secreted phosphoprotein 1,SPP1) 在 这 些 细 胞 间 的 相 互 作 用。方法 从 NCBI GEO 数据库获取 6 只小鼠肝组织单细胞 RNA 测序数据(3 只正常对照小鼠,3 只 CCl4 诱导的肝纤维化模型小鼠)。经 Cell Ranger 比对定量及 Seurat 质控(剔除低质量细胞、双细胞及线粒体基因比例 > 15% 的细胞)共获得 87 552 个细胞。采用主成分分析(principal component analysis,PCA)和均匀流形逼近与投影(uniform manifold approximation and projection,UMAP)降维、Louvain 聚类、Wilcoxon 检验筛选差异基因(|log2FC| > 2,校正 P < 0.05),对差异基因进行 GO 富集分析及 CellChat配体-受体分析。结果 与对照组相比,CCl4 组成纤维细胞数量及占比明显增加(绝对增幅 5.6%~12.4%,P 均 < 0.001),肝细胞比例下降,Acta2、Col1a1、Col1a2 等纤维化标志物表达上调。肝细胞、HSC、LSEC 分别鉴定出 2 132、1 281 和 308 个差异表达基因,其中 SPP1 在三者中均显著上调(log2FC 分别为 5.47、6.08、6.78)。56 个基因在 3 种细胞中共同高表达,富集于炎症、黏附及细胞外基质合成通路;蛋白质互作网络显示 SPP1 处于核心位置。细胞间通讯分析表明,活化 HSC 与 M2 巨噬细胞间交互作用最强,且 SPP1 信号主要源自活化 HSC 和巨噬细胞。通过聚类分析,可将肝细胞分为 7 个亚群(Cluster 0~6),其中 Cluster 1(占21.6%)的 SPP1 平均表达量(8.09)为其他亚群的 5.7~80.9 倍,且 Acta2、Col1a1、Col3a1 亦高表达。活化的 HSC 可分为6 个亚群(Cluster 0~5),Cluster 1(占 33.6%)的 SPP1 平均表达量(3.16)是其他亚群的 1.3~27 倍。LSEC 可分为 6 个亚群(Cluster 0~5),Cluster 1 的 SPP1 平均表达水平最高(3.38);其次为 Cluster 2(2.06)和 Cluster 5(1.15),且 Cluster 2 和 Cluster 5 高表达促纤维化标志物。结论 SPP1 可能作为关键枢纽调控肝细胞、HSC 和 LSEC 协同促进肝纤维化进展。

 Abstract: Objective: To investigate the heterogeneity of hepatocytes and non-parenchymal cells [hepatic stellate cell (HSC), liver sinusoidal endothelial cell (LSEC)] during the progression of liver f ibrosis, as well as the intercellular interactions mediated by secreted phosphoprotein 1 (SPP1) among the above cells. Methods Single-cell RNA sequencing data of liver tissues from 6 mice (3 normal control mice and 3 CCl4-induced liver f ibrosis model mice) were obtained from the NCBI GEO database. Total of 87 552 cells were obtained after cell alignment and quantif ication by Cell Ranger and Seurat quality control (excluding lowquality cells, doublets, and cells with mitochondrial gene ratio > 15%). Dimensionality reduction was performed using principal component analysis (PCA) and uniform manifold approximation and projection (UMAP), followed by Louvain clustering and Wilcoxon test to screen for dif ferentially expressed genes (|log2FC| > 2, adjusted P < 0.05). GO enrichment analysis and CellChat ligand-receptor analysis were performed on the dif ferentially expressed genes. Results Compared with the control group, the number and proportion of f ibroblasts in the CCl4 group were signif icantly increased (absolute increase of 5.6%~12.4%, all P <0.001), while the proportion of hepatocytes was decreased. The expression of f ibrosis markers, including Acta2, Col1a1 and Col1a2, was upregulated. A total of 2 132, 1 281, and 308 differentially expressed genes were identif ied in hepatocytes, HSC and LSEC, respectively, among which SPP1 was signif icantly upregulated in all three cell types (log2FC = 5.47, 6.08 and 6.78, respectively). Fifty-six genes were co-upregulated across the three cell types and were enriched in pathways related to inflammation, adhesion and extracellular matrix synthesis. Protein-protein interaction network showed that SPP1 occupied a central position. Cell-cell communication analysis indicated that the interaction between activated HSC and M2 macrophage was the strongest, and SPP1 signaling mainly originated from activated HSC and macrophage. Through cluster analysis, hepatocytes were divided into 7 subclusters (Cluster 0~6), among which Cluster 1 (accounting for 21.6%) had an average SPP1 expression level (8.09) that was 5.7~80.9 times that of the other clusters, and also showed high expression of Acta2, Col1a1, and Col3a1. Activated HSC were divided into 6 subclusters (Cluster 0~5). The average SPP1 expression level (3.16) in Cluster 1 (accounting for 33.6%) was 1.3~27 times that of the other subclusters. LSEC were divided into 6 subclusters (Cluster 0~5). Cluster 1 had the highest average SPP1 expression level (3.38), followed by Cluster 2 (2.06) and Cluster 5 (1.15). Moreover, Cluster 2 and Cluster 5 highly expressed pro-f ibrotic markers. Conclusion SPP1 might act as a key hub regulating the synergistic promotion of liver f ibrosis progression by hepatocytes, HSC and LSEC.

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