Open AccessReconstruction and validation of a constraint‐based metabolic network model for bone marrow‐derived mesenchymal stem cells
Author(s) -
Fouladiha H.,
Marashi S.A.,
Shokrgozar M. A.
Publication year - 2015
Publication title -
cell proliferation
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.647
H-Index - 74
eISSN - 1365-2184
pISSN - 0960-7722
DOI - 10.1111/cpr.12197
Subject(s) - metabolic network , mesenchymal stem cell , constraint (computer aided design) , bone marrow , biology , computational biology , transcriptome , stem cell , metabolic activity , computer science , bioinformatics , microbiology and biotechnology , immunology , gene , genetics , engineering , physiology , gene expression , mechanical engineering
Objectives Over recent years, constraint‐based modelling of metabolic networks has become increasingly popular; the models are suitable for system‐level modelling of cell physiology. The goal of the present work was to reconstruct a constraint‐based metabolic network model of bone marrow‐derived mesenchymal stem cells ( BMMSC s). Materials and methods To reconstruct a BMMSC ‐specific metabolic model, transcriptomic data of BMMSC s, and additionally, the human generic metabolic network model (Recon1) were used. Then, using the mCADRE algorithm, a draft metabolic network was reconstructed. Literature and proteomic data were subsequently used to refine and improve the draft. From this, i MSC 1255 was derived to be the metabolic network model of BMMSC s. Results i MSC1255 has 1255 genes, 1850 metabolites and 2288 reactions. After including additional constraints based on previously reported experimental results, our model successfully predicted BMMSC growth rate and metabolic phenotypes. Conclusions Here, i MSC 1255 is introduced to be the metabolic network model of bone marrow‐derived mesenchymal stem cells. Based on current knowledge, this is the first report on genome‐scale reconstruction and validation of a stem cell metabolic network model.