Identification of Breed-Specific SNPs of Danish Large White Pig in Comparison with Four Chinese Local Pig Breed Genomes
文献类型： 外文期刊
作者： Wu, Xudong 1 ; Xiang, Decai 2 ; Zhang, Wei 1 ; Ma, Yu 3 ; Zhao, Guiying 4 ; Yin, Zongjun 3 ;
作者机构： 1.Anhui Acad Agr Sci, Inst Anim Husb & Vet Med, Anhui Prov Key Lab Livestock & Poultry Prod Safety, Hefei 230001, Peoples R China
2.Yunnan Acad Anim Husb & Vet Sci, Kunming 650224, Peoples R China
3.Anhui Agr Univ, Coll Anim Sci & Technol, Anhui Prov Lab Local Anim Genet Resource Conservat, Hefei 230036, Peoples R China
4.Yunnan Agr Univ, Coll Anim Sci & Technol, Kunming 650201, Peoples R China
关键词： Large White pig; genome; breed-specific; functional analysis
期刊名称：GENES （ 影响因子：3.5； 五年影响因子：3.9 ）
ISSN：
年卷期： 2024 年 15 卷 5 期
页码：
收录情况： SCI
摘要： Genetic variation facilitates the evolution, environmental adaptability, and biodiversity of organisms. Danish Large White (LW) pigs have more desirable phenotypes compared with local Chinese pigs, which have difficulty adapting to the modern swine industry. However, the genome-wide mutational differences between these pig breeds are yet to be evaluated. Therefore, this study aimed to evaluate genomic variation and identify breed-specific SNPs in Danish LW pigs. Here, 43 LW, 15 Diqing Tibetan (DQZ), and 15 Diannan small-ear (DN) pigs whose genomes were re-sequenced with 5x depth were selected. This was followed by a conjoined analysis of our previous resequencing data of 24 Anqing six-end white (AQ) and six Asian wild (SS) pigs. In total, 39,158,378 SNPs and 13,143,989 insertion-deletions were obtained in all breeds. The variation number of LW pigs was the lowest, with 287,194 breed-specific and 1289 non-synonymous SNPs compared with Chinese breeds. Functional analysis of the breed-specific non-synonymous SNPs indicated that these mutations were mainly associated with the reproductive performance, feed intake, and feed conversion ratio of LW pigs. These findings provide a theoretical basis for genetic improvements in the Chinese swine industry.
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