Miguel Gozalo-Marcilla (Author), Jaap B. Buntjer (Author), Martin Johnsson (Author), Lorena G. Batista (Author), Federico Diez (Author), Christian R. Werner (Author), Ching-Yi Chen (Author), Gregor Gorjanc (Author), Richard J. Mellanby (Author), John M. Hickey (Author), Roger Ros-Freixedes (Author)

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 signifcant associations were identifed using a threshold of p< 10–6 and used to defne genomic regions of interest. The proportion of genetic variance explained by a genomic region was estimated using a ridge regression model. Results: We found signifcant 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 signifcant. We identifed 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 confrm 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.

Keywords

prašiči;genetika;geni;debelina hrbtne slanine;

Data

Language: English
Year of publishing:
Typology: 1.01 - Original Scientific Article
Organization: UL BF - Biotechnical Faculty
UDC: 636.4:575
COBISS: 82703363 Link will open in a new window
ISSN: 1297-9686
Views: 192
Downloads: 50
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Other data

Secondary language: Slovenian
Secondary keywords: prašiči;genetika;geni;debelina hrbtne slanine;
Type (COBISS): Article
Pages: str. 1-14
Volume: ǂVol. ǂ53
Issue: ǂart. ǂ76
Chronology: 22. sep. 2021
DOI: 10.1186/s12711-021-00671-w
ID: 13781557
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