雷琼牛与陆丰牛背最长肌lncRNA表达特点及其相关ceRNA网络分析

doi:10.11843/j.issn.0366-6964.2023.05.017

Abstract

Abstract: The aim of this study was to screen for differentially expressed lncRNAs, miRNAs and mRNAs in the longissimus dorsi of Leiqiong and Lufeng cattle, construct a competitive lncRNA-miRNA-mRNA regulatory network, search for lncRNA cis-targeted regulatory genes, then performed functional prediction to identify key candidate genes that could be used to enhance the utility value of local yellow beef breeds in South China. Four 4-month-old female Leiqiong cattle and four Lufeng cattle were randomly selected, and longissimus dorsi tissues were taken for RNA sequencing, and the sequencing results were verified using RT-qPCR. The differentially expressed lncRNAs, miRNAs and mRNAs were screened for the construction of a competitive regulatory network and the search for lncRNA cis-targeted regulatory genes. Candidate genes were used for functional prediction using GO and KEGG enrichment analysis. The results showed that, using Leiqiong cattle as the control group, there were 119 differentially expressed lncRNAs in the two breeds, of which 73 were up-regulated and 46 were down-regulated; a total of 13 differentially expressed miRNAs, of which 7 were up-regulated and 6 were down-regulated; and a total of 599 differentially expressed mRNAs, of which 155 were up-regulated and 444 were down-regulated. The GO enrichment analysis of mRNAs in the competitive regulatory network showed that the terms related to myogenesis were mainly phosphorylation and membrane structure. The pathways related to myogenesis in the KEGG enrichment analysis results were mainly signaling pathways such as Rap1, MAPK, PI3K-Akt, etc. The GO enrichment analysis of cis-targeted regulatory genes showed that the GO terms related to myogenesis were mainly the development of muscle structure and muscle organ development, etc. The pathways related to myogenesis in the KEGG enrichment results were mainly MAPK signaling pathways and local adhesion, etc.In this study, we screened the differentially expressed lncRNAs, miRNAs and mRNAs in the longissimus dorsi of Leiqiong and Lufeng cattle, and then constructed a competitive regulatory network and searched for lncRNA cis-targeted regulatory genes. The results of the experiments provide theoretical support for further rational development and utilization of the local breeds of yellow cattle in South China.

Key words: Lufeng cattle, Leiqiong cattle, longissimus dorsi, lncRNA, ceRNA networks

CLC Number:

S823.2

YANG Chuang, WU Longfei, LIU Guangbin, LI Yaokun, LIU Dewu, SUN Baoli. Expression Profile and Bioinformatics Analysis of lncRNA and Its Associated ceRNA Networks in Longissimus Dorsi from Lufeng Cattle and Leiqiong Cattle[J]. Acta Veterinaria et Zootechnica Sinica, 2023, 54(5): 1951-1963.

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Expression Profile and Bioinformatics Analysis of lncRNA and Its Associated ceRNA Networks in Longissimus Dorsi from Lufeng Cattle and Leiqiong Cattle

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