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Genome-wide association analysis of thirty one production, health, reproduction and body conformation traits in contemporary U.S. Holstein cows
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Genome-wide association analysis of thirty one production, health, reproduction and body conformation traits in contemporary U.S. Holstein cows
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Journal Article
Genome-wide association analysis of thirty one production, health, reproduction and body conformation traits in contemporary U.S. Holstein cows
2011
Overview
Background
Genome-wide association analysis is a powerful tool for annotating phenotypic effects on the genome and knowledge of genes and chromosomal regions associated with dairy phenotypes is useful for genome and gene-based selection. Here, we report results of a genome-wide analysis of predicted transmitting ability (PTA) of 31 production, health, reproduction and body conformation traits in contemporary Holstein cows.
Results
Genome-wide association analysis identified a number of candidate genes and chromosome regions associated with 31 dairy traits in contemporary U.S. Holstein cows. Highly significant genes and chromosome regions include: BTA13's
GNAS
region for milk, fat and protein yields; BTA7's
INSR
region and BTAX's
LOC520057
and
GRIA3
for daughter pregnancy rate, somatic cell score and productive life; BTA2's
LRP1B
for somatic cell score; BTA14's
DGAT1-NIBP
region for fat percentage;
BTA1
's
FKBP2
for protein yields and percentage, BTA26's
MGMT
and BTA6's
PDGFRA
for protein percentage; BTA18's 53.9-58.7 Mb region for service-sire and daughter calving ease and service-sire stillbirth; BTA18's
PGLYRP1
-
IGFL1
region for a large number of traits; BTA18's
LOC787057
for service-sire stillbirth and daughter calving ease; BTA15's
CD82
, BTA23's
DST
and the
MOCS1
-
LRFN2
region for daughter stillbirth; and BTAX's
LOC520057
and
GRIA3
for daughter pregnancy rate. For body conformation traits, BTA11, BTAX, BTA10, BTA5, and BTA26 had the largest concentrations of SNP effects, and
PHKA2
of BTAX and
REN
of BTA16 had the most significant effects for body size traits. For body shape traits, BTAX, BTA19 and BTA3 were most significant. Udder traits were affected by BTA16, BTA22, BTAX, BTA2, BTA10, BTA11, BTA20, BTA22 and BTA25, teat traits were affected by BTA6, BTA7, BTA9, BTA16, BTA11, BTA26 and BTA17, and feet/legs traits were affected by BTA11, BTA13, BTA18, BTA20, and BTA26.
Conclusions
Genome-wide association analysis identified a number of genes and chromosome regions associated with 31 production, health, reproduction and body conformation traits in contemporary Holstein cows. The results provide useful information for annotating phenotypic effects on the dairy genome and for building consensus of dairy QTL effects.
Publisher
BioMed Central,BioMed Central Ltd,Springer Nature B.V,BMC
Subject
/ Animals
/ Biomedical and Life Sciences
/ Births
/ Cattle
/ Dairying
/ Female
/ Genes
/ Genetics
/ Genomes
/ Genomics
/ Genotype
/ Microbial Genetics and Genomics
/ Milk
/ Non-human and non-rodent vertebrate genomics
/ Polymorphism, Single Nucleotide
/ Quantitative Trait, Heritable
