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♀)...

Descripción completa

Detalles Bibliográficos
Autores principales: Meng, Fanbing, Cai, Jiancheng, Wang, Chunan, Fu, Dechang, Di, Shengwei, Wang, Xibiao, Chang, Yang, Xu, Chunzhu
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