Introgression of Chinese haplotypes contributed to the improvement of Danish Duroc pigs

Publikation: Bidrag til tidsskrift/Konferencebidrag i tidsskrift /Bidrag til avisTidsskriftartikelForskningpeer review

Standard

Introgression of Chinese haplotypes contributed to the improvement of Danish Duroc pigs. / Chen, Minhui; Su, Guosheng; Fu, Jinluan; Wang, Aiguo; Liu, Jian Feng; Lund, Mogens S.; Guldbrandtsen, Bernt.

I: Evolutionary Applications, Bind 12, Nr. 2, 02.2019, s. 292-300.

Publikation: Bidrag til tidsskrift/Konferencebidrag i tidsskrift /Bidrag til avisTidsskriftartikelForskningpeer review

Harvard

APA

CBE

MLA

Vancouver

Author

Chen, Minhui ; Su, Guosheng ; Fu, Jinluan ; Wang, Aiguo ; Liu, Jian Feng ; Lund, Mogens S. ; Guldbrandtsen, Bernt. / Introgression of Chinese haplotypes contributed to the improvement of Danish Duroc pigs. I: Evolutionary Applications. 2019 ; Bind 12, Nr. 2. s. 292-300.

Bibtex

@article{da30fe295c6c40c8ac467f2afa83d140,
title = "Introgression of Chinese haplotypes contributed to the improvement of Danish Duroc pigs",
abstract = "The distribution of Asian ancestry in the genome of Danish Duroc pigs was investigated using whole‐genome sequencing data from European wild boars, Danish Duroc, Chinese Meishan and Bamaxiang pigs. Asian haplotypes deriving from Meishan and Bamaxiang occur widely across the genome. Signatures of selection on Asian haplotypes are common in the genome, but few of these haplotypes have been fixed. By defining 50‐kb windows with more than 50{\%} Chinese ancestry, which did not exhibit extreme genetic differentiation between Meishan and Bamaxiang as candidate regions, the enrichment of quantitative trait loci in candidate regions supports that Asian haplotypes under selection play an important role in contributing genetic variation underlying production, reproduction, meat and carcass, and exterior traits. Gene annotation of regions with the highest proportion of Chinese ancestry revealed genes of biological interest, such as NR6A1. Further haplotype clustering analysis suggested that a haplotype of Chinese origin around the NR6A1 gene was introduced to Europe and then underwent a selective sweep in European pigs. Besides, functional genes in candidate regions, such as AHR and PGRMC2, associated with fertility, and SAL1, associated with meat quality, were identified. Our results demonstrate the contribution of Asian haplotypes to the genomes of European pigs. Findings herein facilitate further genomic studies such as genomewide association study and genomic prediction by providing ancestry information of variants.",
keywords = "genomics, introgression, pigs, population genetics, POPULATION, WILD, NUMBER, DOMESTIC PIG, ADAPTATION, RECEPTOR, SELECTION, GENOME",
author = "Minhui Chen and Guosheng Su and Jinluan Fu and Aiguo Wang and Liu, {Jian Feng} and Lund, {Mogens S.} and Bernt Guldbrandtsen",
year = "2019",
month = "2",
doi = "10.1111/eva.12716",
language = "English",
volume = "12",
pages = "292--300",
journal = "Evolutionary Applications (Online)",
issn = "1752-4563",
publisher = "Wiley-Blackwell Publishing, Inc",
number = "2",

}

RIS

TY - JOUR

T1 - Introgression of Chinese haplotypes contributed to the improvement of Danish Duroc pigs

AU - Chen, Minhui

AU - Su, Guosheng

AU - Fu, Jinluan

AU - Wang, Aiguo

AU - Liu, Jian Feng

AU - Lund, Mogens S.

AU - Guldbrandtsen, Bernt

PY - 2019/2

Y1 - 2019/2

N2 - The distribution of Asian ancestry in the genome of Danish Duroc pigs was investigated using whole‐genome sequencing data from European wild boars, Danish Duroc, Chinese Meishan and Bamaxiang pigs. Asian haplotypes deriving from Meishan and Bamaxiang occur widely across the genome. Signatures of selection on Asian haplotypes are common in the genome, but few of these haplotypes have been fixed. By defining 50‐kb windows with more than 50% Chinese ancestry, which did not exhibit extreme genetic differentiation between Meishan and Bamaxiang as candidate regions, the enrichment of quantitative trait loci in candidate regions supports that Asian haplotypes under selection play an important role in contributing genetic variation underlying production, reproduction, meat and carcass, and exterior traits. Gene annotation of regions with the highest proportion of Chinese ancestry revealed genes of biological interest, such as NR6A1. Further haplotype clustering analysis suggested that a haplotype of Chinese origin around the NR6A1 gene was introduced to Europe and then underwent a selective sweep in European pigs. Besides, functional genes in candidate regions, such as AHR and PGRMC2, associated with fertility, and SAL1, associated with meat quality, were identified. Our results demonstrate the contribution of Asian haplotypes to the genomes of European pigs. Findings herein facilitate further genomic studies such as genomewide association study and genomic prediction by providing ancestry information of variants.

AB - The distribution of Asian ancestry in the genome of Danish Duroc pigs was investigated using whole‐genome sequencing data from European wild boars, Danish Duroc, Chinese Meishan and Bamaxiang pigs. Asian haplotypes deriving from Meishan and Bamaxiang occur widely across the genome. Signatures of selection on Asian haplotypes are common in the genome, but few of these haplotypes have been fixed. By defining 50‐kb windows with more than 50% Chinese ancestry, which did not exhibit extreme genetic differentiation between Meishan and Bamaxiang as candidate regions, the enrichment of quantitative trait loci in candidate regions supports that Asian haplotypes under selection play an important role in contributing genetic variation underlying production, reproduction, meat and carcass, and exterior traits. Gene annotation of regions with the highest proportion of Chinese ancestry revealed genes of biological interest, such as NR6A1. Further haplotype clustering analysis suggested that a haplotype of Chinese origin around the NR6A1 gene was introduced to Europe and then underwent a selective sweep in European pigs. Besides, functional genes in candidate regions, such as AHR and PGRMC2, associated with fertility, and SAL1, associated with meat quality, were identified. Our results demonstrate the contribution of Asian haplotypes to the genomes of European pigs. Findings herein facilitate further genomic studies such as genomewide association study and genomic prediction by providing ancestry information of variants.

KW - genomics

KW - introgression

KW - pigs

KW - population genetics

KW - POPULATION

KW - WILD

KW - NUMBER

KW - DOMESTIC PIG

KW - ADAPTATION

KW - RECEPTOR

KW - SELECTION

KW - GENOME

UR - http://www.scopus.com/inward/record.url?scp=85058449196&partnerID=8YFLogxK

U2 - 10.1111/eva.12716

DO - 10.1111/eva.12716

M3 - Journal article

VL - 12

SP - 292

EP - 300

JO - Evolutionary Applications (Online)

JF - Evolutionary Applications (Online)

SN - 1752-4563

IS - 2

ER -