Novel Transcripts and Their Functional Analysis of Type Ⅱ Alveolar Epithelial Cells in Tibetan Pigs
The annotated Sus scrofa genome information and the new transcript were refined and identified using RNA-seq data,which obtained from type Ⅱ alveolar epithelial cells(AT Ⅱ)of Tibetan pig.Stringtie was used to reconstruct transcripts and identify novel genes based on published AT Ⅱ long-read sequencing data of Tibetan and Landrace pigs.4 245 transcripts had their non-translational regions(UTR)lengthened,comprising 1 646 genes with 5'UTR and 3 263 transcripts with 3'UTR,as well as 648 transcripts with 5'and 3'ends,respectively.The majority of 54 novel transcripts were found on the NC 010448.4 chromosome and had an average fil-tered length of 4 047 bp.GO enrichment analysis results showed that 14 novel transcripts of AT Ⅱ among normoxic(21％O2)and hy-poxic(2％O2)groups of Tibetan pigs were significantly enriched in organelle membrane,restriction of deoxyribonuclease activity and transposition.Numerous divergent novel transcripts were considerably enriched in animal cytokine-cytokine receptor interactions,starch and sucrose metabolism,and mitogen-activated protein kinase(MAPK)signaling pathways by KEGG analysis.Novel transcripts and annotated genes may be involved in the hypoxia response of AT Ⅱ of Tibetan pigs through the starch and sucrose metabolism and MAPK signaling pathway.The results of this research enhance the current annotation of the pig genome and provide a foundation for the ad-vancement of omics and molecular biology in this area.
Type Ⅱ alveolar epithelial cellsTibetan pigNovel transcript
NETL
NSTL
万方数据
