Ding Chen, Li Yanyan, Guo Feifei, Jiang Ying, Ying Wantao, Li Dong, Yang Dong, Xia Xia, Liu Wanlin, Zhao Yan, He Yangzhige, Li Xianyu, Sun Wei, Liu Qiongming, Song Lei, Zhen Bei, Zhang Pumin, Qian Xiaohong, Qin Jun, He Fuchu
From the ‡State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 100039, China; §National Center for Protein Sciences (The PHOENIX center, Beijing), Beijing 102206, China; **State Key Laboratory of Genetic Engineering and Collaborative Innovation Center for Genetics and Development, School of Life Sciences, Institute of Biomedical Sciences, Fudan University, Shanghai 200433, China.
¶School of Life Sciences, Tsinghua University, Beijing 100084, China.
Mol Cell Proteomics. 2016 Oct;15(10):3190-3202. doi: 10.1074/mcp.M116.060145. Epub 2016 Aug 25.
Parenchymatous organs consist of multiple cell types, primarily defined as parenchymal cells (PCs) and nonparenchymal cells (NPCs). The cellular characteristics of these organs are not well understood. Proteomic studies facilitate the resolution of the molecular details of different cell types in organs. These studies have significantly extended our knowledge about organogenesis and organ cellular composition. Here, we present an atlas of the cell-type-resolved liver proteome. In-depth proteomics identified 6000 to 8000 gene products (GPs) for each cell type and a total of 10,075 GPs for four cell types. This data set revealed features of the cellular composition of the liver: (1) hepatocytes (PCs) express the least GPs, have a unique but highly homogenous proteome pattern, and execute fundamental liver functions; (2) the division of labor among PCs and NPCs follows a model in which PCs make the main components of pathways, but NPCs trigger the pathways; and (3) crosstalk among NPCs and PCs maintains the PC phenotype. This study presents the liver proteome at cell resolution, serving as a research model for dissecting the cell type constitution and organ features at the molecular level.
实质器官由多种细胞类型组成，主要分为实质细胞（PCs）和非实质细胞（NPCs）。这些器官的细胞特征尚未得到充分了解。蛋白质组学研究有助于解析器官中不同细胞类型的分子细节。这些研究极大地扩展了我们对器官发生和器官细胞组成的认识。在此，我们展示了一份细胞类型解析的肝脏蛋白质组图谱。深入的蛋白质组学研究为每种细胞类型鉴定出6000至8000个基因产物（GPs），四种细胞类型总共鉴定出10,075个GPs。该数据集揭示了肝脏细胞组成的特征：（1）肝细胞（PCs）表达的GPs最少，具有独特但高度同质的蛋白质组模式，并执行肝脏的基本功能；（2）PCs和NPCs之间的分工遵循一种模式，即PCs构成通路的主要成分，但NPCs触发这些通路；（3）NPCs和PCs之间的相互作用维持了PCs的表型。本研究以细胞分辨率展示了肝脏蛋白质组，为在分子水平剖析细胞类型构成和器官特征提供了一个研究模型。
