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Transcriptome Analysis of Bovine Rumen Tissue in Three Developmental Stages

文献类型： 外文期刊

作者： Zhang, Yapeng 1 ; Cai, Wentao 1 ; Li, Qian 1 ; Wang, Yahui 1 ; Wang, Zezhao 1 ; Zhang, Qi 1 ; Xu, Lingyang 1 ; Xu, Lei 1 ; Hu, Xin 1 ; Zhu, Bo 1 ; Gao, Xue 1 ; Chen, Yan 1 ; Gao, Huijiang 1 ; Li, Junya 1 ; Zhang, Lupei 1 ;

作者机构： 1.Chinese Acad Agr Sci, Inst Anim Sci, Beijing, Peoples R China

2.Anhui Acad Agr Sci, Inst Anim Husb & Vet Res, Hefei, Peoples R China

关键词： rumen development; carcass traits; beef cattle; transcriptome; GWAS enrichment analysis

期刊名称：FRONTIERS IN GENETICS （ 影响因子：4.772； 五年影响因子：4.933 ）

ISSN：

年卷期： 2022 年 13 卷

页码：

收录情况： SCI

摘要： Rumen development is a crucial physiological challenge for ruminants. However, the molecular mechanism regulating rumen development has not been clearly elucidated. In this study, we investigated genes involved in rumen development in 13 rumen tissues from three developmental stages (birth, youth, and adult) using RNA sequencing. We identified that 6,048 genes were differentially expressed among three developmental stages. Using weighted correlation network analysis, we found that 12 modules were significantly associated with developmental stages. Functional annotation and protein-protein interaction (PPI) network analysis revealed that CCNB1, CCNB2, IGF1, IGF2, HMGCL, BDH1, ACAT1, HMGCS2, and CREBBP involved in rumen development. Integrated transcriptome with GWAS information of carcass weight (CW), stomach weight (SW), marbling score (MS), backfat thickness (BFT), ribeye area (REA), and lean meat weight (LMW), we found that upregulated DEGs (fold change 0 similar to 1) in birth-youth comparison were significantly enriched with GWAS signals of MS, downregulated DEGs (fold change >3) were significantly enriched with GWAS signals of SW, and fold change 0 similar to 1 up/downregulated DEGs in birth-adult comparison were significantly enriched with GWAS signals of CW, LMW, REA, and BFT. Furthermore, we found that GWAS signals for CW, LMW, and REA were enriched in turquoise module, and GWAS signals for CW was enriched in lightgreen module. Our study provides novel insights into the molecular mechanism underlying rumen development in cattle and highlights an integrative analysis for illustrating the genetic architecture of beef complex traits.

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