Whole Genome Association Studies of Residual Feed Intake and Related Traits in the Pig

Residual feed intake (RFI), a measure of feed efficiency, is the difference between observed feed intake and the expected feed requirement predicted from growth and maintenance. Pigs with low RFI have reduced feed costs without compromising their growth. Identification of genes or genetic markers as...

Full description

Saved in:
Bibliographic Details
Published in:PloS one 2013-06, Vol.8 (6), p.e61756-e61756
Main Authors: Onteru, Suneel K, Gorbach, Danielle M, Young, Jennifer M, Garrick, Dorian J, Dekkers, Jack C M, Rothschild, Max F
Format: Article
Language:English
Subjects:
Adipose Tissue - metabolism
Agriculture
Alleles
Animals
Bayesian analysis
Biology
Body Weight - genetics
Cattle
Computer programs
Energy balance
Fat metabolism
Feed efficiency
Gene Frequency
Gene mapping
Genes
Genetic markers
Genome-wide association studies
Genome-Wide Association Study
Genomics
Haplotypes
Hogs
Homeostasis
Insulin
Leptin
Marker-assisted selection
Metabolism
Muscles
Muscles - anatomy & histology
Myogenesis
Phenotype
Pigs
Polymorphism, Single Nucleotide
Predictive maintenance
Quantitative trait loci
Single-nucleotide polymorphism
Statistical analysis
Statistical methods
Suidae
Sus scrofa - genetics
Sus scrofa - growth & development
Transforming growth factor-b1
Weaning
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:Residual feed intake (RFI), a measure of feed efficiency, is the difference between observed feed intake and the expected feed requirement predicted from growth and maintenance. Pigs with low RFI have reduced feed costs without compromising their growth. Identification of genes or genetic markers associated with RFI will be useful for marker-assisted selection at an early age of animals with improved feed efficiency. Whole genome association studies (WGAS) for RFI, average daily feed intake (ADFI), average daily gain (ADG), back fat (BF) and loin muscle area (LMA) were performed on 1,400 pigs from the divergently selected ISU-RFI lines, using the Illumina PorcineSNP60 BeadChip. Various statistical methods were applied to find SNPs and genomic regions associated with the traits, including a Bayesian approach using GenSel software, and frequentist approaches such as allele frequency differences between lines, single SNP and haplotype analyses using PLINK software. Single SNP and haplotype analyses showed no significant associations (except for LMA) after genomic control and FDR. Bayesian analyses found at least 2 associations for each trait at a false positive probability of 0.5. At generation 8, the RFI selection lines mainly differed in allele frequencies for SNPs near (
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0061756