Cargando…
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♀)...
Autores principales: | , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Animal Bioscience
2022
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9659443/ https://www.ncbi.nlm.nih.gov/pubmed/35798042 http://dx.doi.org/10.5713/ab.21.0571 |
_version_ | 1784830198763487232 |
---|---|
author | Meng, Fanbing Cai, Jiancheng Wang, Chunan Fu, Dechang Di, Shengwei Wang, Xibiao Chang, Yang Xu, Chunzhu |
author_facet | Meng, Fanbing Cai, Jiancheng Wang, Chunan Fu, Dechang Di, Shengwei Wang, Xibiao Chang, Yang Xu, Chunzhu |
author_sort | Meng, Fanbing |
collection | PubMed |
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 (F(PED)) was significantly different from those estimated from runs of homozygosity (F(ROH)) and single nucleotide polymorphism (F(SNP)) based on genome. The Pearson correlation coefficient between F(ROH) and F(SNP) 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. |
format | Online Article Text |
id | pubmed-9659443 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Animal Bioscience |
record_format | MEDLINE/PubMed |
spelling | pubmed-96594432022-12-01 Single nucleotide polymorphism-based analysis of the genetic structure of the Min pig conserved population Meng, Fanbing Cai, Jiancheng Wang, Chunan Fu, Dechang Di, Shengwei Wang, Xibiao Chang, Yang Xu, Chunzhu Anim Biosci Article 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 (F(PED)) was significantly different from those estimated from runs of homozygosity (F(ROH)) and single nucleotide polymorphism (F(SNP)) based on genome. The Pearson correlation coefficient between F(ROH) and F(SNP) 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. Animal Bioscience 2022-12 2022-06-30 /pmc/articles/PMC9659443/ /pubmed/35798042 http://dx.doi.org/10.5713/ab.21.0571 Text en Copyright © 2022 by Animal Bioscience https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Article Meng, Fanbing Cai, Jiancheng Wang, Chunan Fu, Dechang Di, Shengwei Wang, Xibiao Chang, Yang Xu, Chunzhu Single nucleotide polymorphism-based analysis of the genetic structure of the Min pig conserved population |
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 | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9659443/ https://www.ncbi.nlm.nih.gov/pubmed/35798042 http://dx.doi.org/10.5713/ab.21.0571 |
work_keys_str_mv | AT mengfanbing singlenucleotidepolymorphismbasedanalysisofthegeneticstructureoftheminpigconservedpopulation AT caijiancheng singlenucleotidepolymorphismbasedanalysisofthegeneticstructureoftheminpigconservedpopulation AT wangchunan singlenucleotidepolymorphismbasedanalysisofthegeneticstructureoftheminpigconservedpopulation AT fudechang singlenucleotidepolymorphismbasedanalysisofthegeneticstructureoftheminpigconservedpopulation AT dishengwei singlenucleotidepolymorphismbasedanalysisofthegeneticstructureoftheminpigconservedpopulation AT wangxibiao singlenucleotidepolymorphismbasedanalysisofthegeneticstructureoftheminpigconservedpopulation AT changyang singlenucleotidepolymorphismbasedanalysisofthegeneticstructureoftheminpigconservedpopulation AT xuchunzhu singlenucleotidepolymorphismbasedanalysisofthegeneticstructureoftheminpigconservedpopulation |