2. Academic Validation
  3. Transcriptome-based systematic identification of extracellular matrix proteins

Transcriptome-based systematic identification of extracellular matrix proteins

  • Proc Natl Acad Sci U S A. 2008 Sep 2;105(35):12849-54. doi: 10.1073/pnas.0803640105.
Ri-ichiroh Manabe 1,  Ko Tsutsui,  Tomiko Yamada,  Mina Kimura,  Itsuko Nakano,  Chisei Shimono,  Noriko Sanzen,  Yutaka Furutani,  Tomohiko Fukuda,  Yasuko Oguri,  Keiko Shimamoto,  Daiji Kiyozumi,  Yuya Sato,  Yoshikazu Sado,  Haruki Senoo,  Shohei Yamashina,  Shiro Fukuda,  Jun Kawai,  Nobuo Sugiura,  Koji Kimata,  Yoshihide Hayashizaki,  Kiyotoshi Sekiguchi
Affiliations

Affiliation

  • 1 Sekiguchi Biomatrix Signaling Project, Exploratory Research for Advanced Technology, Japan Science and Technology Agency, c/o Aichi Medical University, Nagakute, Aichi 480-1195, Japan.
PMID: 18757743 DOI: 10.1073/pnas.0803640105
Abstract

Extracellular matrix (ECM), which provides critical scaffolds for all adhesive cells, regulates proliferation, differentiation, and Apoptosis. Different cell types employ customized ECMs, which are thought to play important roles in the generation of so-called niches that contribute to cell-specific functions. The molecular entities of these customized ECMs, however, have not been elucidated. Here, we describe a strategy for transcriptome-wide identification of ECM proteins based on computational screening of >60,000 full-length mouse cDNAs for secreted proteins, followed by in vitro functional assays. These assays screened the candidate proteins for ECM-assembling activities, interactions with other ECM molecules, modifications with glycosaminoglycans, and cell-adhesive activities, and were then complemented with immunohistochemical analysis. We identified 16 ECM proteins, of which seven were localized in basement membrane (BM) zones. The identification of these previously unknown BM proteins allowed us to construct a body map of BM proteins, which represents the comprehensive immunohistochemistry-based expression profiles of the tissue-specific customization of BMs.

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