Genome-wide association and genotype by environment interactions for growth traits in U.S. Gelbvieh cattle
Autor: | Miranda L. Wilson, Christopher M. Seabury, David L. Oldeschulte, Robert D. Schnabel, Jared E. Decker, Troy N. Rowan, Sara M. Nilson, Johanna L. Smith |
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Jazyk: | angličtina |
Rok vydání: | 2019 |
Předmět: |
lcsh:QH426-470
QTL lcsh:Biotechnology Quantitative Trait Loci Single-nucleotide polymorphism Genome-wide association study Weaning Quantitative trait locus Beef cattle Biology Polymorphism Single Nucleotide 03 medical and health sciences Quantitative Trait Heritable Species Specificity lcsh:TP248.13-248.65 Genotype Genetics Animals Birth Weight Gene–environment interaction 030304 developmental biology Oligonucleotide Array Sequence Analysis 2. Zero hunger 0303 health sciences 0402 animal and dairy science 04 agricultural and veterinary sciences GWAA Heritability 040201 dairy & animal science lcsh:Genetics Genotype-by-environment interaction Gelbvieh Genetic marker Cattle Gene-Environment Interaction Growth traits Biotechnology Research Article Genome-Wide Association Study |
Zdroj: | BMC Genomics BMC Genomics, Vol 20, Iss 1, Pp 1-13 (2019) |
ISSN: | 1471-2164 |
Popis: | BackgroundSingle nucleotide polymorphism (SNP) arrays have facilitated discovery of genetic markers associated with complex traits in domestic cattle; thereby enabling modern breeding and selection programs. Genome-wide association analyses (GWAA) for growth traits were conducted on 10,837 geographically diverse U.S. Gelbvieh cattle using a union set of 856,527 imputed SNPs. Birth weight (BW), weaning weight (WW), and yearling weight (YW) were analyzed using GEMMA and EMMAX (via imputed genotypes). Genotype-by-environment (GxE) interactions were also investigated.ResultsGEMMA and EMMAX produced moderate marker-based heritability estimates that were similar for BW (0.36–0.37, SE = 0.02–0.06), WW (0.27–0.29, SE = 0.01), and YW (0.39–0.41, SE = 0.01–0.02). GWAA using 856K imputed SNPs (GEMMA; EMMAX) revealed common positional candidate genes underlying pleiotropic QTL for Gelbvieh growth traits on BTA6, BTA7, BTA14, and BTA20. The estimated proportion of phenotypic variance explained (PVE) by the lead SNP defining these QTL (EMMAX) was larger and most similar for BW and YW, and smaller for WW. Collectively, GWAAs (GEMMA; EMMAX) produced a highly concordant set of BW, WW, and YW QTL that met a nominal significance level (P ≤ 1e-05), with prioritization of common positional candidate genes; including genes previously associated with stature, feed efficiency, and growth traits (i.e.,PLAG1,NCAPG,LCORL,ARRDC3,STC2). Genotype-by-environment QTL were not consistent among traits at the nominal significance threshold (P ≤ 1e-05); although some shared QTL were apparent at less stringent significance thresholds (i.e.,P ≤ 2e-05).ConclusionsPleiotropic QTL for growth traits were detected on BTA6, BTA7, BTA14, and BTA20 for U.S. Gelbvieh beef cattle. Seven QTL detected for Gelbvieh growth traits were also recently detected for feed efficiency and growth traits in U.S. Angus, SimAngus, and Hereford cattle. Marker-based heritability estimates and the detection of pleiotropic QTL segregating in multiple breeds support the implementation of multiple-breed genomic selection. |
Databáze: | OpenAIRE |
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