LncRNAs are regulated by chromatin states and affect the skeletal muscle cell differentiation

Xiaolong Qi, Mingyang Hu, Yue Xiang, Daoyuan Wang, Yueyuan Xu, Ye Hou, Huanhuan Zhou, Yu Luan, Zhangxu Wang, Weiya Zhang, Xinyun Li, Shuhong Zhao, Yunxia Zhao

Research output: Contribution to journalArticlepeer-review

9 Scopus citations

Abstract

Objective: This study aims to clarify the mechanisms underlying transcriptional regulation and regulatory roles of lncRNAs in skeletal muscle cell differentiation. Methods: We analysed the expression patterns of lncRNAs via time-course RNA-seq. Then, we further combined the ATAC-seq and ChIP-seq to investigate the governing mechanisms of transcriptional regulation of differentially expressed (DE) lncRNAs. Weighted correlation network analysis and GO analysis were conducted to identify the transcription factor (TF)-lncRNA pairs related to skeletal muscle cell differentiation. Results: We identified 385 DE lncRNAs during C2C12 differentiation, the transcription of which is determined by chromatin states around their transcriptional start sites. The TF-lncRNA correlation network showed substantially concordant changes in DE lncRNAs between C2C12 differentiation and satellite cell rapid growth stages. Moreover, the up-regulated lncRNAs showed a significant decrease following the differentiation capacity of satellite cells, which gradually declines during skeletal muscle development. Notably, inhibition of the lncRNA Atcayos and Trp53cor1 led to the delayed differentiation of satellite cells. Those lncRNAs were significantly up-regulated during the rapid growth stage of satellite cells (4-6 weeks) and down-regulated with reduced differentiation capacity (8-12 weeks). It confirms that these lncRNAs are positively associated with myogenic differentiation of satellite cells during skeletal muscle development. Conclusions: This study extends the understanding of mechanisms governing transcriptional regulation of lncRNAs and provides a foundation for exploring their functions in skeletal muscle cell differentiation.

Original languageEnglish (US)
Article numbere12879
JournalCell Proliferation
Volume53
Issue number9
DOIs
StatePublished - Sep 1 2020
Externally publishedYes

Keywords

  • C2C12
  • chromatin state
  • differentiation capacity
  • lncRNA
  • muscle satellite cell
  • transcription factor

ASJC Scopus subject areas

  • Cell Biology

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