Single nucleotide polymorphism-based analysis of the genetic structure of the Min pig conserved population
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...
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| Format: | Article |
| Language: | English |
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Asian-Australasian Association of Animal Production Societies
2022-12-01
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| Series: | Animal Bioscience |
| Subjects: | |
| Online Access: | http://www.animbiosci.org/upload/pdf/ab-21-0571.pdf |
| _version_ | 1811233032542093312 |
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| author | Fanbing Meng Jiancheng Cai Chunan Wang Dechang Fu Shengwei Di Xibiao Wang Yang Chang Chunzhu Xu |
| author_facet | Fanbing Meng Jiancheng Cai Chunan Wang Dechang Fu Shengwei Di Xibiao Wang Yang Chang Chunzhu Xu |
| author_sort | Fanbing Meng |
| collection | DOAJ |
| description | 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. |
| first_indexed | 2024-04-12T11:14:14Z |
| format | Article |
| id | doaj.art-1f21d23c997143e3b1257d0fd7c0f21c |
| institution | Directory Open Access Journal |
| issn | 2765-0189 2765-0235 |
| language | English |
| last_indexed | 2024-04-12T11:14:14Z |
| publishDate | 2022-12-01 |
| publisher | Asian-Australasian Association of Animal Production Societies |
| record_format | Article |
| series | Animal Bioscience |
| spelling | doaj.art-1f21d23c997143e3b1257d0fd7c0f21c2022-12-22T03:35:33ZengAsian-Australasian Association of Animal Production SocietiesAnimal Bioscience2765-01892765-02352022-12-0135121839184910.5713/ab.21.057124912Single nucleotide polymorphism-based analysis of the genetic structure of the Min pig conserved populationFanbing Meng0Jiancheng Cai1Chunan Wang2Dechang Fu3Shengwei Di4Xibiao Wang5Yang Chang6Chunzhu Xu7 College of Life Science, Northeast Agricultural University, Harbin 150030, China Lanxi Breeding Farm, Lanxi 151500, China Lanxi Breeding Farm, Lanxi 151500, China Lanxi Breeding Farm, Lanxi 151500, China College of Animal Science and Technology, Northeast Agricultural University, Harbin 150030, China College of Animal Science and Technology, Northeast Agricultural University, Harbin 150030, China College of Life Science, Northeast Agricultural University, Harbin 150030, China College of Life Science, Northeast Agricultural University, Harbin 150030, ChinaObjective 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.http://www.animbiosci.org/upload/pdf/ab-21-0571.pdfgenetic diversitymolecular pedigreepopulation structuresingle nucleotide polymorphism (snp) chip |
| spellingShingle | Fanbing Meng Jiancheng Cai Chunan Wang Dechang Fu Shengwei Di Xibiao Wang Yang Chang Chunzhu Xu Single nucleotide polymorphism-based analysis of the genetic structure of the Min pig conserved population Animal Bioscience genetic diversity molecular pedigree population structure single nucleotide polymorphism (snp) chip |
| title | Single nucleotide polymorphism-based analysis of the genetic structure of the Min pig conserved population |
| title_full | Single nucleotide polymorphism-based analysis of the genetic structure of the Min pig conserved population |
| title_fullStr | Single nucleotide polymorphism-based analysis of the genetic structure of the Min pig conserved population |
| title_full_unstemmed | Single nucleotide polymorphism-based analysis of the genetic structure of the Min pig conserved population |
| title_short | Single nucleotide polymorphism-based analysis of the genetic structure of the Min pig conserved population |
| title_sort | single nucleotide polymorphism based analysis of the genetic structure of the min pig conserved population |
| topic | genetic diversity molecular pedigree population structure single nucleotide polymorphism (snp) chip |
| url | http://www.animbiosci.org/upload/pdf/ab-21-0571.pdf |
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