Home About Browse Search
Svenska


Genetic architecture and major genes for backfat thickness in pig lines of diverse genetic backgrounds

Gozalo-Marcilla, Miguel and Buntjer, Jaap and Johnsson, Martin and Batista, Lorena and Diez, Federico and Chen, Ching-Yi and Werner, Christian R. and Gorjanc, Gregor and Mellanby, Richard J. and Hickey, John M. and Ros-Freixedes, Roger (2021). Genetic architecture and major genes for backfat thickness in pig lines of diverse genetic backgrounds. Genetics Selection Evolution. 53 , 76
[Research article]

[img] PDF
2MB

Abstract

Background Backfat thickness is an important carcass composition trait for pork production and is commonly included in swine breeding programmes. In this paper, we report the results of a large genome-wide association study for backfat thickness using data from eight lines of diverse genetic backgrounds. Methods Data comprised 275,590 pigs from eight lines with diverse genetic backgrounds (breeds included Large White, Landrace, Pietrain, Hampshire, Duroc, and synthetic lines) genotyped and imputed for 71,324 single-nucleotide polymorphisms (SNPs). For each line, we estimated SNP associations using a univariate linear mixed model that accounted for genomic relationships. SNPs with significant associations were identified using a threshold of p < 10(-6) and used to define genomic regions of interest. The proportion of genetic variance explained by a genomic region was estimated using a ridge regression model. Results We found significant associations with backfat thickness for 264 SNPs across 27 genomic regions. Six genomic regions were detected in three or more lines. The average estimate of the SNP-based heritability was 0.48, with estimates by line ranging from 0.30 to 0.58. The genomic regions jointly explained from 3.2 to 19.5% of the additive genetic variance of backfat thickness within a line. Individual genomic regions explained up to 8.0% of the additive genetic variance of backfat thickness within a line. Some of these 27 genomic regions also explained up to 1.6% of the additive genetic variance in lines for which the genomic region was not statistically significant. We identified 64 candidate genes with annotated functions that can be related to fat metabolism, including well-studied genes such as MC4R, IGF2, and LEPR, and more novel candidate genes such as DHCR7, FGF23, MEDAG, DGKI, and PTN. Conclusions Our results confirm the polygenic architecture of backfat thickness and the role of genes involved in energy homeostasis, adipogenesis, fatty acid metabolism, and insulin signalling pathways for fat deposition in pigs. The results also suggest that several less well-understood metabolic pathways contribute to backfat development, such as those of phosphate, calcium, and vitamin D homeostasis.

Authors/Creators:Gozalo-Marcilla, Miguel and Buntjer, Jaap and Johnsson, Martin and Batista, Lorena and Diez, Federico and Chen, Ching-Yi and Werner, Christian R. and Gorjanc, Gregor and Mellanby, Richard J. and Hickey, John M. and Ros-Freixedes, Roger
Title:Genetic architecture and major genes for backfat thickness in pig lines of diverse genetic backgrounds
Series Name/Journal:Genetics Selection Evolution
Year of publishing :2021
Volume:53
Article number:76
Number of Pages:14
Publisher:BMC
ISSN:0999-193X
Language:English
Publication Type:Research article
Article category:Scientific peer reviewed
Version:Published version
Copyright:Creative Commons: Attribution 4.0
Full Text Status:Public
Subjects:(A) Swedish standard research categories 2011 > 4 Agricultural Sciences > 404 Agricultural Biotechnology > Genetics and Breeding
URN:NBN:urn:nbn:se:slu:epsilon-p-113809
Permanent URL:
http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-p-113809
Additional ID:
Type of IDID
DOI10.1186/s12711-021-00671-w
Web of Science (WoS)000698398100002
ID Code:25563
Faculty:VH - Faculty of Veterinary Medicine and Animal Science
Department:(VH) > Dept. of Animal Breeding and Genetics
Deposited By: SLUpub Connector
Deposited On:05 Oct 2021 16:25
Metadata Last Modified:05 Oct 2021 16:31

Repository Staff Only: item control page

Downloads

Downloads per year (since September 2012)

View more statistics

Downloads
Hits