利用加权基因共表达网络分析筛选天农麻鸡胴体性状候选基因

doi:10.11843/j.issn.0366-6964.2022.07.010

Abstract

Abstract: The purpose of this study was to screen candidate genes for carcass traits of slow-growing yellow-feather broiler (Tiannong partridge chickens) by transcriptome sequencing (RNA-Seq) and weighted gene co-expression network analysis (WGCNA). The total of 104 Tiannong partridge chickens were slaughtered at 126 days of age. The 7 carcass traits including breast muscle weight were measured, and breast muscle tissues were collected for RNA-Seq. After obtaining the gene expression matrix based on RNA-Seq data, combined with the phenotype, WGCNA was carried out to determine the target module, screen the hub genes of the target module. KEGG pathway enrichment, protein-protein interaction network (PPI) construction and correlation analysis were carried out, respectively. The 15 092 genes were expressed in 104 breast muscle tissues after RNA-Seq quality control. By WGCNA of carcass phenotype, 19 modules were obtained, of which 4 modules were extremely significantly correlated with carcass traits. The results of functional enrichment showed that genes in the target modules were mainly enriched in ECM-receptor interaction, focal adhesion and other pathways. The 58 hub genes were screened according to|Module membership|> 0.8,|Gene significance|> 0.2. The 5 network node genes were identified through PPI network construction. By integrating correlation analysis, COL1A2 and SPARC were identified as the most important candidate genes. This study found that ECM-receptor interaction and other pathways played a major role in the regulation of carcass traits of Tiannong partridge chickens through large-scale transcriptome analysis. COL1A2 and SPARC are selected as important candidate genes affecting the percentage of eviscerated yield. The results lay a theoretical foundation for identifying molecular markers and analyzing the molecular mechanism of carcass traits, and provide an important reference for the breeding of slow-growing yellow- feather broilers.

Key words: Tiannong partridge chickens, carcass traits, RNA-Seq, WGCNA

CLC Number:

S831.2

ZHAO Di, KANG Huimin, TAN Xiaodong, LIU Ranran, ZHANG Zhengfen, LI Hua, ZHAO Guiping. Screening of Candidate Genes for Carcass Traits of Tiannong Partridge Chicken Using Weighted Gene Co-expression Network Analysis[J]. Acta Veterinaria et Zootechnica Sinica, 2022, 53(7): 2130-2140.

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Screening of Candidate Genes for Carcass Traits of Tiannong Partridge Chicken Using Weighted Gene Co-expression Network Analysis

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