基于转录组数据挖掘牦牛皱胃发育代谢的关键候选基因

doi:10.11843/j.issn.0366-6964.2024.01.016

Abstract

Abstract: This study aimed to compare the changes in abomasum index and transcriptome expression profile of yaks at different ages, and to explore the signaling pathways and key genes that affect the development and metabolism of abomasum, so as to provide theoretical basis for further study of development mechanism of abomasum in yaks. Abomasum tissues of yaks at 1 day, 20 days, 60 days, 15 months and 3 years old were selected for transcriptome sequencing. The RNA-Seq data were performed quality-controlled, alignment, differential genes screening; GO and KEGG analysis were conducted for differentially expressed genes(DEGs). To further verify the reliability of sequencing data, 5 DEGs were randomly selected for qRT-PCR verification. The results showed that rumen weight increased the fastest, followed by omasum, reticulum and abomasum during development. Compared with 1 day, 1 310, 1 715, 1 931 and 2 199 DEGs were identified at 20 days, 60 days, 15 months and 3 years old, respectively. A total of 565 DEGs were defined as common DEGs among 4 closed groups. Compared with the previous time point, 1 310, 861, 569 and 597 DEGs were identified at 20 days, 60 days, 15 months and 3 years old, respectively, with a total of 9 common DEGs in the 4 consecutive groups. The GO functional annotation found that, taking 1-day-old group as the control, 1 191, 2 578, 1 117 and 2 835 significant items were enriched in 20-day-old, 60-day-old, 15-month-old and 3-year-old groups, respectively. Among the top 10 significant GO items in different age groups, there were common ones, as well as unique ones in each age group. KEGG enrichment analysis showed that there were 4, 1, 3 and 4 unique signaling pathways in the top 30 significant pathways at 20 days old, 60 days old, 15 months old and 3 years old, respectively, including ECM receptor interaction, cytochrome P450 metabolism of exogenous substances, drug metabolism-cytochrome P450 pathways and other pathways related to abomasum development. The qRT-PCR results were basically consistent with sequencing results, indicating that the sequencing results were reliable. Through transcriptome sequencing and bioinformatics analysis of abomasum tissues at different developmental stages of yaks, the differentially expressed candidate genes related to development and metabolism of abomasum were screened, and these genes were mainly involved in the proliferation and differentiation of gastric epithelial cells, cells differentiation and immune regulation. Among them, GKN1, CXCL17, SCNN1B, SCNN1G, CCL5 and IGF2BP3 may play an important role in the development of abomasum in yaks. The signal pathways and candidate genes involved in glucose metabolism, glucose transport, fatty acid transport and peptide transport in abomasum were further screened. Among them, GANAB, GBA2, SLC2A1, SLC2A3, SLC2A4, CPT1B and SLC15A1 were important candidate genes related to nutrient metabolism and absorption in abomasum of yaks.

Key words: different ages, yak, abomasum, transcriptome, development, metabolism

CLC Number:

S823.85

LIU Yili, TANG Jiao, MIN Qi, YANG Lu, WANG Zening, HU Lian, ZHAO Di, JIANG Mingfeng. Mining Key Candidate Genes of Development and Metabolism in Yak Abomasum Based on Transcriptome Data[J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(1): 153-168.

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Mining Key Candidate Genes of Development and Metabolism in Yak Abomasum Based on Transcriptome Data

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