IFAM_Yorkshire_Pig_Datasets

Yorkshire Pig DatasetA total of 16,783 Yorkshire pigs were recruited from a commercial breeding farm and all pigs were raised under standardized husbandry conditions. Tail tissue samples were collected from each pig during the routine tail-docking procedure for piglets. This non-invasive integration into standard farm management practices minimized additional stress to the animals. Immediately after collection, the tail tissues were preserved in 75% ethanol and stored at -20°C to maintain DNA integrity. All preserved samples were transported to Yingzi Gene Technology Co., Ltd. (Wuhan, China) for genomic analysis. Genomic DNA was extracted from the tail tissues using standard protocols. High-throughput genotyping was subsequently performed using the pig 80K functional variants genotyping array. The genotype data with 187,000 SNPs were imputed using the reference panel and the imputation tool from the AGIDB website (http://animalbreedinglab.hzau.edu.cn/AGIDB/home/home.php), and variants with imputation accuracy R2 > 0.7 were retained. Following the same quality control protocols applied to the Duroc pig dataset, a total of 15,457,739 SNPs were reserved for analysis. We collected five key production traits at the end of the finishing period (approximately 120 kg body weight), including the age adjusted to 100 kg (D100, N=16,732), backfat thickness adjusted to 100 kg (BF100, N=16,673), eye muscle area adjusted to 100 kg (LMA100, N=15,852), left teat number (LTN, N=13,726), right teat number (RTN, N=13,726), and total teat number (TTN, N=13,726). All phenotypes were pre-adjusted for sex, line, and year-season. A list of SNPs within functional annotations from the IFmut database were provided as well.EthicsThe Animal Ethics Committee of Huazhong Agricultural University granted approval for the experimental designs and procedures (approval no: [HZAUSW20260016]). Rigorous measures were undertaken to assure the well-being and humane handling of the Yorkshire pigs engaged in this study. The gathering of specimens and data was executed in conformity with the pertinent regulations and directives on animal welfare and protection.OtherThe source data of Supplementary Fig. 13-17 are provided here as well.