Exploration of alternative splicing events in mesenchymal stem cells from human induced pluripotent stem cells

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Title
Exploration of alternative splicing events in mesenchymal stem cells from human induced pluripotent stem cells
Author(s)
Ji Eun Jeong; Binna SeolHan-Seop Kim; Jae Yun Kim; Yee Sook Cho
Bibliographic Citation
Genes, vol. 12, no. 5, pp. 737-737
Publication Year
2021
Abstract
Although comparative genome-wide transcriptomic analysis has provided insight into the biology of human induced pluripotent stem cell-derived mesenchymal stem cells (iMSCs), the distinct alternative splicing (AS) signatures of iMSCs remain elusive. Here, we performed Illumina RNA sequencing analysis to characterize AS events in iMSCs compared with tissue-derived MSCs. A total of 4586 differentially expressed genes (|FC| > 2) were identified between iMSCs and umbilical cord blood-derived MSCs (UCB-MSCs), including 2169 upregulated and 2417 downregulated genes. Of these, 164 differentially spliced events (BF > 20) in 112 genes were identified between iMSCs and UCB-MSCs. The predominant type of AS found in iMSCs was skipped exons (43.3%), followed by retained introns (19.5%), alternative 3′ (15.2%) and 5′ (12.8%) splice sites, and mutually exclusive exons (9.1%). Functional enrichment analysis showed that the differentially spliced genes (|FC| > 2 and BF > 20) were mainly enriched in functions associated with focal adhesion, extracellular exosomes, extracellular matrix organization, cell adhesion, and actin binding. Splice isoforms of selected genes including TRPT1, CNN2, and AP1G2, identified in sashimi plots, were further validated by RT-PCR analysis. This study provides valuable insight into the biology of iMSCs and the translation of mechanistic understanding of iMSCs into therapeutic applications.
Keyword
Human induced pluripotent stem cellsDifferentiationMesenchymal stem cellsRNA sequencingTranscriptomeAlternative splicing
ISSN
2073-4425
Publisher
MDPI
DOI
http://dx.doi.org/10.3390/genes12050737
Type
Article
Appears in Collections:
Division of Biomedical Research > Immunotherapy Research Center > 1. Journal Articles
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