Biomaterial Database

Genome-wide association study of three litter traits in Yorkshire pigs. 2022

Lijun Shi, and Huihui Li, and Xuefeng Gao, and Lixian Wang

Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing, China.

Litter traits are important in the development of production and economic profits of pigs. The object of this study was to perform genome-wide association studies (GWASs) for the total number born (TNB), number born alive (NBA) and number born healthy (NBH) traits in a Yorkshire population. By mixed model, we conducted GWASs with gcta software, and in total identified 3, 7 and 12 significant SNPs associated with TNB, NBA and NBH respectively: one on Sus scrofa chromosome (SSC) 2 (p = 7.03 × 10-5 ), one on SSC4 (p = 8.53 × 10-5 ), two on SSC 6 (p = 9.27 × 10-5 to 9.64 × 10-5 ), nine on SSC 8 (p = 1.53 × 10-5 to 8.52 × 10-5 ), four on SSC 14 (p = 2.17 × 10-5 to 6.79 × 10-5 ), and one on SSC 15 (p = 9.30 × 10-5 ). We screened for flanking regions ±1 Mb nearby or within the significant SNPs, and found 203 candidate genes, including 53 for TNB, 71 for NBA and 112 for NBH. In conclusion, our findings show the significant SNPs with candidate genes for the TNB, NBA and NBH traits in Yorkshire pigs.

UI	MeSH Term	Description	Entries
D008098	Litter Size	The number of offspring produced at one birth by a viviparous animal.	Litter Sizes,Size, Litter,Sizes, Litter
D010641	Phenotype	The outward appearance of the individual. It is the product of interactions between genes, and between the GENOTYPE and the environment.	Phenotypes
D011247	Pregnancy	The status during which female mammals carry their developing young (EMBRYOS or FETUSES) in utero before birth, beginning from FERTILIZATION to BIRTH.	Gestation,Pregnancies
D005260	Female		Females
D000818	Animals	Unicellular or multicellular, heterotrophic organisms, that have sensation and the power of voluntary movement. Under the older five kingdom paradigm, Animalia was one of the kingdoms. Under the modern three domain model, Animalia represents one of the many groups in the domain EUKARYOTA.	Animal,Metazoa,Animalia
D013552	Swine	Any of various animals that constitute the family Suidae and comprise stout-bodied, short-legged omnivorous mammals with thick skin, usually covered with coarse bristles, a rather long mobile snout, and small tail. Included are the genera Babyrousa, Phacochoerus (wart hogs), and Sus, the latter containing the domestic pig (see SUS SCROFA).	Phacochoerus,Pigs,Suidae,Warthogs,Wart Hogs,Hog, Wart,Hogs, Wart,Wart Hog
D055106	Genome-Wide Association Study	An analysis comparing the allele frequencies of all available (or a whole GENOME representative set of) polymorphic markers to identify gene candidates or quantitative trait loci associated with a specific organism trait or specific disease or condition.	Genome Wide Association Analysis,Genome Wide Association Study,GWA Study,Genome Wide Association Scan,Genome Wide Association Studies,Whole Genome Association Analysis,Whole Genome Association Study,Association Studies, Genome-Wide,Association Study, Genome-Wide,GWA Studies,Genome-Wide Association Studies,Studies, GWA,Studies, Genome-Wide Association,Study, GWA,Study, Genome-Wide Association
D020641	Polymorphism, Single Nucleotide	A single nucleotide variation in a genetic sequence that occurs at appreciable frequency in the population.	SNPs,Single Nucleotide Polymorphism,Nucleotide Polymorphism, Single,Nucleotide Polymorphisms, Single,Polymorphisms, Single Nucleotide,Single Nucleotide Polymorphisms
D034421	Sus scrofa	A species of SWINE, in the family Suidae, comprising a number of subspecies including the domestic pig Sus scrofa domestica.	Pig, Domestic,Sus scrofa domesticus,Wild Boar,Sus scrofa domestica,Boar, Wild,Boars, Wild,Domestic Pig,Domestic Pigs,Pigs, Domestic,Wild Boars
D036801	Parturition	The process of giving birth to one or more offspring.	Birth,Childbirth,Births,Childbirths,Parturitions