AI Article Synopsis
- Zhaotong pigs (ZTPs) are an indigenous breed from Yunnan, China, notable for their unique features, high-quality meat, and adaptability, but genetic research on them is limited.
- Through resequencing 30 ZTPs and comparing them with 10 Asian wild boars, researchers found that ZTPs have higher genetic diversity and lower inbreeding coefficients, indicating a distinct population independent of AWBs.
- The study also identified 1104 selected regions and 275 candidate genes linked to traits such as fat deposition, reproduction, growth, tooth development, and immune response, setting a foundation for future breeding and conservation efforts for ZTPs.
Article Abstract
Zhaotong pig (ZTP) is a Chinese indigenous pig breed in Yunnan Province, known for its unique body shape and appearance, good meat quality, strong foraging ability, and adaptability. However, there is still a lack of research on its genome. In order to investigate the genetic diversity, population structure, and selection signatures of the breed, we conducted a comprehensive analysis by resequencing on 30 ZTPs and comparing them with genomic data from 10 Asian wild boars (AWBs). A total of 45,514,452 autosomal SNPs were detected in the 40 pigs, and 23,649,650 SNPs were retained for further analysis after filtering. The H, H, P, MAF, π, and Fis values were calculated to evaluate the genetic diversity, and the results showed that ZTPs had higher genetic diversity and lower inbreeding coefficient compared with AWBs. Population structure was analyzed using NJ tree, PCA, ADMIXTURE, and LD methods. It was found that ZTPs were population independent of AWBs and had a lower LD decay compared to AWBs. Moreover, the results of the IBS genetic distance and G matrix showed that most of the individuals had large genetic distances and distant genetic relationships in ZTPs. Selection signatures were detected between ZTPs and AWBs by using two methods, F and π ratio. Totals of 1104 selected regions and 275 candidate genes were identified. Finally, functional enrichment analysis identified some annotated genes that might affect fat deposition (, , and ), reproduction (, , , , and ), growth ( and ), tooth development (, , and ), and immune response (, , and ). Our results will provide a valuable basis for the future effective protection, breeding, and utilization of ZTPs.
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| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC11544797 | PMC |
| http://dx.doi.org/10.3390/ani14213129 | DOI Listing |
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