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Comparative proteome and transcriptome analyses of embryonic stem cells during embryoid body‐based differentiation
Author(s) -
Fathi Ali,
Pakzad Mohammad,
Taei Adele,
Brink Thore C.,
Pirhaji Leila,
Ruiz Guifré,
Sharif Tabe Bordbar Mohammad,
Gourabi Hamid,
Adjaye James,
Baharvand Hossein,
Hosseini Salekdeh Ghasem
Publication year - 2009
Publication title -
proteomics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.26
H-Index - 167
eISSN - 1615-9861
pISSN - 1615-9853
DOI - 10.1002/pmic.200900003
Subject(s) - embryoid body , transcriptome , biology , proteome , embryonic stem cell , microbiology and biotechnology , proteomics , cellular differentiation , gene expression profiling , stem cell , gene expression , gene , computational biology , bioinformatics , genetics , induced pluripotent stem cell
Gene expression analyses of embryonic stem cells (ESCs) will help to uncover or further define signaling pathways and molecular mechanisms involved in the maintenance of self‐renewal and pluripotency. We employed a 2‐DE‐based proteomics approach to analyze human ESC line, Royan H5, in undifferentiated cells and different stages of spontaneous differentiation (days 3, 6, 12, and 20) by embryoid body formation. Out of 945 proteins reproducibly detected on gels, the expression of 96 spots changed during differentiation. Using MS, 87 ESC‐associated proteins were identified including several proteins involved in cell proliferation, cell apoptosis, transcription, translation, mRNA processing, and protein folding. Transcriptional changes accompanying differentiation of Royan H5 were also analyzed using microarrays. We developed a comprehensive data set that shows the use of human ESC lines in vitro to mimic gastrulation and organogenesis. Our results showed that proteomics and transcriptomics data are complementary rather than duplicative. Although regulation of many genes during differentiation were observed only at transcript level, modulation of several proteins was revealed only by proteome analysis.