Establishment and transcriptomic analyses of a cattle rumen epithelial primary cells (REPC) culture by bulk and single-cell RNA sequencing to elucidate interactions of butyrate and rumen development

Heliyon

Erin E. Connor¹  George Liu²  Lingzhao Fang³  Shuli Liu⁴  Ransom L. Baldwin, VI⁵  Cong-Jun Li⁵  Mei Liu⁵  Xiaolong Kang⁵  Shudai Lin⁵ 

[1]College of Agriculture, Ningxia University, Yinchuan, 750021, China

[2]College of Animal Science and Technology, China Agricultural University, Beijing, 100193, China

[3]Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding and Key Lab of Chicken Genetics, Breeding and Reproduction, Ministry of Agriculture, College of Animal Science of South China Agricultural University, Guangzhou, 510642, China

[4]Medical Research Council Human Genetics Unit at the Medical Research Council Institute of Genetics and Molecular Medicine, University of Edinburgh, Edinburgh, EH4 2XU, United Kingdom

[5]Animal Genomics and Improvement Laboratory, Agricultural Research Service, USDA, Beltsville, MD, USA

关键词: Agriculture;    Bioinformatics;    Cell biology;    Developmental biology;    Butyrate;    Epigenetic regulation;   

DOI  :  

来源: DOAJ

【 摘 要 】

As a critical and high-value tool to study the development of rumen, we established a stable rumen epithelial primary cell (REPC) culture from a two-week-old Holstein bull calf rumen epithelial tissue. The transcriptomic profiling of the REPC and the direct effects of butyrate on gene expression were assessed. Correlated gene networks elucidated the putative roles and mechanisms of butyrate action in rumen epithelial development. The top networks perturbed by butyrate were associated with epithelial tissue development. Additionally, two critical upstream regulators, E2F1 and TGFB1, were identified to play critical roles in the differentiation, development, and growth of epithelial cells. Significant expression changes of upstream regulators and transcription factors provided further evidence in support that butyrate plays a specific and central role in regulating genomic and epigenomic activities influencing rumen development. This work is the essential component to obtain a complete global landscape of regulatory elements in cattle and to explore the dynamics of chromatin states in rumen epithelial cells induced by butyrate at early developmental stages.

【 授权许可】

Unknown