整合转录组测序数据鉴定影响猪肉质性状的差异表达基因

doi:10.16431/j.cnki.1671-7236.2024.05.016

Abstract

Abstract: 【Objective】 The aim of this study was to analyze the integrated transcriptome sequencing data of Chinese indigenous pigs and lean pigs,identify the differentially expressed genes (DEGs) in longissimus dorsi muscle,and find out the potential candidate genes that contributed to the differences in meat quality traits between Chinese indigenous pigs and lean pigs,in order to provide a references for meat quality research in pigs.【Method】 The raw sequencing data of Chinese indigenous pigs and lean pigs were downloaded from the NCBI-SRA database and self-test data were integrated,including 32 samples from 8 Chinese indigenous pig breeds and 14 samples from 2 lean pig breeds,and the data were filtered,quality controlled,compared and counted,the DEGs were screened using DESeq2 software in R and subjected to gene enrichment analysis as well as protein-protein interaction (PPI) analysis.【Result】 In the results of differential expression analysis,there were 191 DEGs in Chinese indigenous pigs compared with lean pigs,of which 149 were highly expressed and 42 were lowly expressed.Nine significantly enriched pathways were obtained through gene enrichment analysis,and the DEGs might affect meat quality traits by regulating fat deposition and metabolism,glucose metabolism,insulin production,energy metabolism,pigmentation and other processes.The PPI analysis identified 21 genes that played an important role in the regulatory network,which FABP3,SLC38A4,KIT and LDHB genes were at the core of the PPI network.【Conclusion】 The experiment identified that genes such as FABP3,CTSL,PLIN5,SLC38A4,KIT,APPL1,IDNK, LDHB,ND6,SLC39A8, GPR27 and KCNJ13 were related to the differences of meat quality traits in Chinese indigenous pigs and lean pigs,which directly or indirectly regulated meat quality traits.The results provided a theoretical basis for the excavation of new genes as well as the study on genes of regulating meat quality traits in pigs.

Key words: pigs; transcriptome; differentially expressed genes; gene enrichment

CLC Number:

S813.3

TIAN Zuoning, XING Kai, ZHANG Yinhua, BAO Shuai, CAO Yongchun. Identification of Differentially Expressed Genes Affecting Meat Quality Traits in Pigs Using Integrated Transcriptome Sequencing Data[J]. China Animal Husbandry and Veterinary Medicine, 2024, 51(5): 1947-1957.

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Identification of Differentially Expressed Genes Affecting Meat Quality Traits in Pigs Using Integrated Transcriptome Sequencing Data

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