Transcriptomics analysis of proliferation and differentiation of buffalo muscle stem cells
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ABSTRACT:
PROVIDER: PRJNA692112 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR13435634_1.fastq.gz | Fastqsanger.gz | |||
| SRR13435634_2.fastq.gz | Fastqsanger.gz | |||
| SRR13435635_1.fastq.gz | Fastqsanger.gz | |||
| SRR13435635_2.fastq.gz | Fastqsanger.gz | |||
| SRR13435636_1.fastq.gz | Fastqsanger.gz |
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Project description:Long non-coding RNAs (lncRNAs) have been identified in various tissues and cell types from human, monkey, porcine and mouse. However, expression profile of lncRNAs across Guangxi native cattle and swamp buffalo muscle development has never been investigated. Here, we examine the expression of lncRNA in cattle and buffalo muscle at adult stage(12 months), exhibiting the first report of lncRNA in the Guangxi native cattle and swamp buffalo muscle development of a large animal. 16,236 lncRNA candidates were obtained from buffalo skeletal muscle samples, of which a number of lncRNAs were highly abundant, and 2,161 lncRNAs were differentially expressed between buffalo and cattle. Real-time quantitative PCR (qPCR) analysis confirmed the expression profile of these lncRNAs, including several highly abundant lncRNAs, and a subset of differently expressed lncRNAs according to the high-throughput RNA sequencing (RNA-seq) data. These results indicate that abundant lncRNA is differentially expressed in bovine muscle, indicating important and diverse functions in mammalian muscle development.
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Project description:Transcriptomics analysis of proliferation and differentiation of Guangxi cattle muscle stem cells
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Project description:More and more studies have shown that mRNAs and non-coding RNAs are involved in human diseases and various biological processes of animals, and play an important functional role in animal muscle growth and development. In this study, the expression levels of myogenic marker molecules MYOD1, MYOG, and MyHC increased after cattle muscle stem cells transition from proliferation to differentiation, which promoted the differentiation and maturation of cells. Then, we used RNA sequencing and bioinformatics to analyze the RNA expression of muscle stem cell proliferation phase (GM) and differentiation phase (DM). The results showed that 19,341 protein-coding RNAs (mRNAs) and 12,920 non-coding RNAs participated in the proliferation and differentiation of cattle muscle stem cells. And there were 2,148 differential mRNAs and 888 non-coding RNAs, including 113 miRNAs, 662 lncRNAs, and 113 circRNAs. These differentially expressed mRNAs are enriched in ECM receptor function, cell cycle, TGF-beta, PI3K-Akt and other signaling pathways, covering biological processes such as cell proliferation, invasion, differentiation, and autophagy. At the same time, we verified the expression levels of 7 mRNAs, 3 miRNAs, 2 lncRNAs, and 12 circRNAs by real-time quantitative PCR analysis, and selected circUBE2Q2 for functional verification. The expression profiling analysis showed that circUBE2Q2 was expressed in multiple tissues, and its expression in muscle stem cell differentiation phase was significantly higher than that in proliferation phase. In vitro cell experiments, circUBE2Q2 significantly promoted the differentiation and apoptosis of MuSCs and had no effect on proliferation. It indicates that circRNA plays a role in the muscle development of Guangxi cattle. Our research revealed the role of RNA expression in the proliferation and differentiation of Guangxi cattle muscle stem cells. These results provide new clues for the analysis of the mechanism by which mRNAs and non-coding RNAs regulate the proliferation and differentiation of Guangxi cattle muscle stem cells.
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