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Anim Biosci > Accepted Articles
https://doi.org/10.5713/ab.21.0571    [Accepted] Published online June 30, 2022.
Single nucleotide polymorphism-based analysis of the genetic structure of the Min pig conserved population
Fanbing Meng1  , Jiancheng Cai2  , Chunan Wang2  , Dechang Fu2  , Shengwei Di3  , Xibiao Wang3  , Yang Chang1,*  , Chunzhu Xu1,* 
1College of Life Science, Northeast Agricultural University, Harbin 150030, China
2Lanxi breeding Farm, Lanxi 151500, China
3College of Animal Science and Technology, Northeast Agricultural University, Harbin 150030, China
Correspondence:  Yang Chang,Email: changy051@neau.edu.cn
Chunzhu Xu, Tel: +86-451-55190413, Fax: +86-451-55190413, Email: cxu@neau.edu.cn
Received: 27 December 2021   • Revised: 11 April 2022   • Accepted: 3 June 2022
Abstract
Objective
The study aims to uncover the genetic diversity and unique genetic structure of the Min pig conserved population, divide the nucleus conservation population, and construct the molecular pedigree.
Methods
We used KPS Porcine Breeding Chip v1 50K for SNP detection of 94 samples (31♂,63♀) in the Min pig conserved population from Lanxi breeding Farm.
Results
The polymorphic marker ratio (PN), the observed heterozygosity (Ho), and the expected heterozygosity (He) were 0.663, 0.335 and 0.330, respectively. The pedigree-based inbreeding coefficients (FPED) was significantly different from those estimated from runs of homozygosity (FROH) and single nucleotide polymorphism (FSNP) based on genome. The Pearson correlation coefficient between FROH and FSNP was significant (P < 0.05). The effective population content (Ne) showed a continuously decreasing trend. The rate of decline was the slowest from 200 to 50 generations ago (r = 0.95), then accelerated slightly from 50 to 5 generations ago (1.40 < r < 1.50) and increased significantly in the last 5 generations (r = 2.6). According to the composition of Chinese lineage, we separated the nucleus conservation population (81 individuals) and the candidate conservation population (13 individuals) of Min pig, then the nucleus conservation population of Min pig was divided into 9 families by genomic information matrix.

Conclusion

Our study indicated that the genetic diversity of the Min pig conserved population was inadequate. Due to the introgression of European commercial pig breeds and the unscientific breeding process, it is necessary to construct the molecular pedigree of the nucleus conservation population for the Min pig.
Keywords: Genetic Diversity; Population Structure; SNP Chip; Molecular Pedigree


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