Department of Biochemistry and Molecular Genetics, School of Medicine, University of Colorado, Aurora, Colorado 80045, United States.
Cancer Center Proteomics Core, School of Medicine, University of Colorado, Aurora, Colorado 80045, United States.
J Proteome Res. 2023 Mar 3;22(3):790-801. doi: 10.1021/acs.jproteome.2c00526. Epub 2023 Feb 10.
The extracellular matrix (ECM) is a critical non-cellular component of multicellular organisms containing a variety of proteins, glycoproteins, and proteoglycans which have been implicated in a wide variety of essential biological processes, including development, wound healing, and aging. Due to low solubility, many ECM proteins have been underrepresented in previous proteomic datasets. Using an optimized three-step decellularization and ECM extraction method involving chaotrope extraction and digestion via hydroxylamine hydrochloride, we have generated coverage of the matrisome across 25 organs. We observe that the top 100 most abundant proteins from the ECM fractions of all tissues are generally present in all tissues, indicating that tissue matrices are principally composed of a shared set of ECM proteins. However, these proteins vary up to 4000-fold between tissues, resulting in highly unique matrix profiles even with the same primary set of proteins. A data reduction approach was used to reveal related networks of expressed ECM proteins across varying tissues, including basement membrane and collagen subtypes.
细胞外基质 (ECM) 是多细胞生物的一种关键非细胞成分，包含多种蛋白质、糖蛋白和蛋白聚糖，这些成分参与了广泛的重要生物学过程，包括发育、伤口愈合和衰老。由于溶解度低，许多 ECM 蛋白在以前的蛋白质组学数据集中代表性不足。我们使用一种经过优化的三步去细胞化和 ECM 提取方法，涉及变性剂提取和通过盐酸羟胺消化，生成了 25 种器官的基质组覆盖度。我们观察到，所有组织的 ECM 部分中最丰富的前 100 种蛋白质通常存在于所有组织中，表明组织基质主要由一组共享的 ECM 蛋白质组成。然而，这些蛋白质在组织之间的差异高达 4000 倍，即使使用相同的主要蛋白质组，也会产生高度独特的基质谱。我们使用一种数据简化方法来揭示不同组织中表达的 ECM 蛋白质的相关网络，包括基底膜和胶原亚型。
