Quantitative proteome remodeling characterization of two human reference pluripotent stem cell lines during neurogenesis and cardiomyogenesis Journal Article
| Authors: | Nam, K. H.; Ordureau, A. |
| Article Title: | Quantitative proteome remodeling characterization of two human reference pluripotent stem cell lines during neurogenesis and cardiomyogenesis |
| Abstract: | Human pluripotent stem cells (PSCs) have become popular tools within the research community to study developmental and model diseases. While many induced-PSCs (iPSCs) from various genetic background sources are currently available, scientific advancement has been hampered by the considerable phenotypic variations observed between different iPSC lines. A recent collaborative effort selected a novel iPSC line to address this and encourage the adoption of a standardized iPSC line termed KOLF2.1J. Here, leveraging the multiplexing power of isobaric labeling, we systematically investigate, at the 10k proteome level, the relative protein abundance profiles of the KOLF2.1J reference iPSC line upon two distinct cell state differentiation trajectories. In addition, we side-by-side systematically compare this line with the H9 line, an established embryonically derived PSC line that we previously characterized. We noticed differences in the basal proteome of the two cell lines and highlighted the differentially expressed proteins. While the difference between the cell line's proteome subsisted upon differentiation, the global proteome remodeling trajectory was highly similar during the tested differentiation routes. We thus conclude that the KOLF2.1J line performs well at the proteome level upon the neuro and cardiomyogenesis differentiation protocol used. We believe this dataset will serve as a resource of value for the research community. © 2022 Wiley-VCH GmbH. |
| Keywords: | controlled study; protein phosphorylation; unclassified drug; human cell; genetics; proteome; metabolism; platelet derived growth factor alpha receptor; cell line; transcription factor; neural stem cell; cell differentiation; proteomics; standardization; quantitative analysis; brain development; pluripotent stem cell; pluripotent stem cells; nervous system development; neurogenesis; phenotypic variation; octamer transcription factor 4; phosphoprotein; transcription factor nanog; heart development; induced pluripotent stem cells; myocyte enhancer factor 2; transcription factor gata 6; peptide analysis; ring finger protein; heart contraction; induced pluripotent stem cell; humans; human; article; rna sequencing; transcription factor zeb1; genetic background; gene editing; transcription factor tbx5; zinc finger e box binding homeobox 2; cardiac muscle; tmt labeling; octamer transcription factor; faims; h9 cells; induced-pluripotent stem cells (ipscs); kolf2.1j cells; tmtpro; myocyte enhancer factor 2c; pou3f2 protein; ring finger protein 207; transcription factor hand 2; transcription factor hand1; cardiac stem cell; h9 cell line; isobaric labeling |
| Journal Title: | Proteomics |
| Volume: | 22 |
| Issue: | 19-20 |
| ISSN: | 1615-9853 |
| Publisher: | Wiley V C H Verlag Gmbh |
| Date Published: | 2022-10-01 |
| Start Page: | 2100246 |
| Language: | English |
| DOI: | 10.1002/pmic.202100246 |
| PUBMED: | 35871287 |
| PROVIDER: | scopus |
| PMCID: | PMC10389174 |
| DOI/URL: | |
| Notes: | Published in the Special Issue: Isobaric Labeling in Quantitative Proteomics -- Export Date: 1 November 2022 -- Source: Scopus |
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