高级检索+

基于RNA-Seq鉴定和分析蒙古牛抗寒过程中骨骼肌的可变剪接事件

Identification and analysis of alternative splicing events in skeletal muscle of Mongolian cattle during cold tolerance based on RNA-Seq

  • 摘要: 为了鉴定和分析蒙古牛抗寒过程中骨骼肌发生的可变剪接(AS)事件,试验采用Illumina NovaseqTM 6000测序平台对冬季组和夏季组蒙古牛的骨骼肌组织分别进行转录组测序,使用rMATS软件对样品中的AS事件与差异剪接基因(DSG)进行鉴定,并对DSG进行GO富集和KEGG信号通路分析。结果表明:转录组测序共获得272 950 322条原始读长,冬季组与夏季组中发生的AS事件分别为10 966,13 756个,两组的AS事件都以外显子跳跃(SE)事件为主,SE事件在冬夏两组的AS事件总数中所占比例分别为78.64%、82.48%。冬季组与夏季组间共检测到843个显著的DSG。DSG在生物过程、细胞组分和分子功能类别中分别富集到了380,105,174个GO条目。DSG共在20条信号通路中发生富集,其中PPAR信号通路、胰岛素抵抗、TCA循环及昼夜节律等与能量代谢密切相关的信号通路富集明显。说明冬夏两季蒙古牛骨骼肌可能在脂质代谢、氧化应激、胰岛素敏感性及昼夜节律方面存在较大差异。

     

    Abstract: In order to identify and analyze alternative splicing events(AS) in skeletal muscle of Mongolian cattle during cold resistance, the Illumina NovaseqTM 6000 platform was used for transcriptomic sequencing of skeletal muscle tissues of Mongolian cattle in winter and summer, respectively. The AS event and differential splicing gene(DSG) between winter and summer in skeletal muscle of Mongolian cattle were identified using rMATS software. The GO function enrichment and KEGG pathway analysis were performed for DSGs. The results showed that a total of 272 950 322 raw reads were obtained by transcriptomic sequencing, and there were 10 966 and 13 756 AS events in the winter and summer groups, respectively. Skipped exon(SE) accounted for 78.64% and 82.48% of AS events in winter and summer groups, respectively. A total of 843 significant DSGs were identified between winter and summer groups. DSGs enriched 380, 105 and 174 GO terms in biological processes, cell components and molecular functional categories, respectively. DSGs were enriched in 20 signal pathways, among which PPAR signal pathway, insulin resistance, TCA cycle and circadian rhythm pathways which were closely related to energy metabolism were significantly enriched. The results indicated that there might be significant differences in lipid metabolism, oxidative stress, insulin sensitivity and circadian rhythm in Mongolian cattle skeletal muscle between winter and summer.

     

/

返回文章
返回