Transcriptomic profiling and functional prediction reveal aberrant expression of circular RNAs during osteogenic differentiation in human umbilical cord mesenchymal stromal cells

Abstract Circular RNAs (circRNAs) are crucial elements of non-coding RNA, that regulate various biological processes. To date, expression patterns and functional roles of circRNAs during osteogenic differentiation of human umbilical cord mesenchymal stromal cells (hUCMSCs) remain unknown. In this st...

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Autores principales:	Cheng Su, Xiao Zheng, Yanjin He, Li Long, Wenchuan Chen
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/dee35193e47243f19818fb6de84d864b
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spelling	oai:doaj.org-article:dee35193e47243f19818fb6de84d864b2021-12-02T18:01:40ZTranscriptomic profiling and functional prediction reveal aberrant expression of circular RNAs during osteogenic differentiation in human umbilical cord mesenchymal stromal cells10.1038/s41598-021-98470-22045-2322https://doaj.org/article/dee35193e47243f19818fb6de84d864b2021-10-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-98470-2https://doaj.org/toc/2045-2322Abstract Circular RNAs (circRNAs) are crucial elements of non-coding RNA, that regulate various biological processes. To date, expression patterns and functional roles of circRNAs during osteogenic differentiation of human umbilical cord mesenchymal stromal cells (hUCMSCs) remain unknown. In this study, we analyzed RNA-sequence data to reveal expression profiles of circRNAs during osteogenesis of hUCMSCs, then elucidated the underlying mechanisms of action. We identified a total of 5457 circRNAs in hUCMSCs, of which 34 and 33 were upregulated and downregulated, respectively. We applied Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analyses to determine functions and related pathways of differentially expressed circRNAs. Moreover, we applied bioinformatics tools to construct competing endogenous RNA networks, comprising 10 circRNAs, 46 micro RNAs and 413 mRNAs. Furthermore, we predicted protein-coding potential of the upregulated circRNAs then constructed a co-expression network comprising the top 5 upregulated circRNAs and 75 RNA-binding proteins. Next, we validated 6 differentially-expressed circRNAs and found that overexpressing circ‐CTTN could promote osteogenesis of hUCMSCs. Overall, our findings indicate that clusters of circRNAs are aberrantly expressed in hUCMSCs during osteogenic differentiation, hence lay a foundation for future research into promoting hUCMSCs osteogenic differentiation and bone regeneration.Cheng SuXiao ZhengYanjin HeLi LongWenchuan ChenNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-9 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Cheng Su Xiao Zheng Yanjin He Li Long Wenchuan Chen Transcriptomic profiling and functional prediction reveal aberrant expression of circular RNAs during osteogenic differentiation in human umbilical cord mesenchymal stromal cells
description	Abstract Circular RNAs (circRNAs) are crucial elements of non-coding RNA, that regulate various biological processes. To date, expression patterns and functional roles of circRNAs during osteogenic differentiation of human umbilical cord mesenchymal stromal cells (hUCMSCs) remain unknown. In this study, we analyzed RNA-sequence data to reveal expression profiles of circRNAs during osteogenesis of hUCMSCs, then elucidated the underlying mechanisms of action. We identified a total of 5457 circRNAs in hUCMSCs, of which 34 and 33 were upregulated and downregulated, respectively. We applied Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analyses to determine functions and related pathways of differentially expressed circRNAs. Moreover, we applied bioinformatics tools to construct competing endogenous RNA networks, comprising 10 circRNAs, 46 micro RNAs and 413 mRNAs. Furthermore, we predicted protein-coding potential of the upregulated circRNAs then constructed a co-expression network comprising the top 5 upregulated circRNAs and 75 RNA-binding proteins. Next, we validated 6 differentially-expressed circRNAs and found that overexpressing circ‐CTTN could promote osteogenesis of hUCMSCs. Overall, our findings indicate that clusters of circRNAs are aberrantly expressed in hUCMSCs during osteogenic differentiation, hence lay a foundation for future research into promoting hUCMSCs osteogenic differentiation and bone regeneration.
format	article
author	Cheng Su Xiao Zheng Yanjin He Li Long Wenchuan Chen
author_facet	Cheng Su Xiao Zheng Yanjin He Li Long Wenchuan Chen
author_sort	Cheng Su
title	Transcriptomic profiling and functional prediction reveal aberrant expression of circular RNAs during osteogenic differentiation in human umbilical cord mesenchymal stromal cells
title_short	Transcriptomic profiling and functional prediction reveal aberrant expression of circular RNAs during osteogenic differentiation in human umbilical cord mesenchymal stromal cells
title_full	Transcriptomic profiling and functional prediction reveal aberrant expression of circular RNAs during osteogenic differentiation in human umbilical cord mesenchymal stromal cells
title_fullStr	Transcriptomic profiling and functional prediction reveal aberrant expression of circular RNAs during osteogenic differentiation in human umbilical cord mesenchymal stromal cells
title_full_unstemmed	Transcriptomic profiling and functional prediction reveal aberrant expression of circular RNAs during osteogenic differentiation in human umbilical cord mesenchymal stromal cells
title_sort	transcriptomic profiling and functional prediction reveal aberrant expression of circular rnas during osteogenic differentiation in human umbilical cord mesenchymal stromal cells
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/dee35193e47243f19818fb6de84d864b
work_keys_str_mv	AT chengsu transcriptomicprofilingandfunctionalpredictionrevealaberrantexpressionofcircularrnasduringosteogenicdifferentiationinhumanumbilicalcordmesenchymalstromalcells AT xiaozheng transcriptomicprofilingandfunctionalpredictionrevealaberrantexpressionofcircularrnasduringosteogenicdifferentiationinhumanumbilicalcordmesenchymalstromalcells AT yanjinhe transcriptomicprofilingandfunctionalpredictionrevealaberrantexpressionofcircularrnasduringosteogenicdifferentiationinhumanumbilicalcordmesenchymalstromalcells AT lilong transcriptomicprofilingandfunctionalpredictionrevealaberrantexpressionofcircularrnasduringosteogenicdifferentiationinhumanumbilicalcordmesenchymalstromalcells AT wenchuanchen transcriptomicprofilingandfunctionalpredictionrevealaberrantexpressionofcircularrnasduringosteogenicdifferentiationinhumanumbilicalcordmesenchymalstromalcells
_version_	1718378960300015616

Transcriptomic profiling and functional prediction reveal aberrant expression of circular RNAs during osteogenic differentiation in human umbilical cord mesenchymal stromal cells

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