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Multiple-trait QTL mapping and genomic prediction for wool traits in sheep
- Source :
- Genetics Selection Evolution, Genetics Selection Evolution, BioMed Central, 2017, 49 (1), pp.62. ⟨10.1186/s12711-017-0337-y⟩, Genetics Selection Evolution, Vol 49, Iss 1, Pp 1-22 (2017), Genetics, Selection, Evolution : GSE
- Publication Year :
- 2017
- Publisher :
- HAL CCSD, 2017.
-
Abstract
- Background The application of genomic selection to sheep breeding could lead to substantial increases in profitability of wool production due to the availability of accurate breeding values from single nucleotide polymorphism (SNP) data. Several key traits determine the value of wool and influence a sheep’s susceptibility to fleece rot and fly strike. Our aim was to predict genomic estimated breeding values (GEBV) and to compare three methods of combining information across traits to map polymorphisms that affect these traits. Methods GEBV for 5726 Merino and Merino crossbred sheep were calculated using BayesR and genomic best linear unbiased prediction (GBLUP) with real and imputed 510,174 SNPs for 22 traits (at yearling and adult ages) including wool production and quality, and breech conformation traits that are associated with susceptibility to fly strike. Accuracies of these GEBV were assessed using fivefold cross-validation. We also devised and compared three approximate multi-trait analyses to map pleiotropic quantitative trait loci (QTL): a multi-trait genome-wide association study and two multi-trait methods that use the output from BayesR analyses. One BayesR method used local GEBV for each trait, while the other used the posterior probabilities that a SNP had an effect on each trait. Results BayesR and GBLUP resulted in similar average GEBV accuracies across traits (~0.22). BayesR accuracies were highest for wool yield and fibre diameter (>0.40) and lowest for skin quality and dag score (
- Subjects :
- 0301 basic medicine
Candidate gene
Animal breeding
Genotype
lcsh:QH426-470
[SDV]Life Sciences [q-bio]
Quantitative Trait Loci
Single-nucleotide polymorphism
Genome-wide association study
Breeding
Best linear unbiased prediction
Quantitative trait locus
Biology
Polymorphism, Single Nucleotide
03 medical and health sciences
Genetics
Animals
Ecology, Evolution, Behavior and Systematics
lcsh:SF1-1100
2. Zero hunger
Genome
Sheep
Wool
0402 animal and dairy science
Genomics
04 agricultural and veterinary sciences
General Medicine
Heritability
040201 dairy & animal science
lcsh:Genetics
030104 developmental biology
Trait
Animal Science and Zoology
lcsh:Animal culture
Genome-Wide Association Study
Research Article
Subjects
Details
- Language :
- English
- ISSN :
- 0999193X and 12979686
- Database :
- OpenAIRE
- Journal :
- Genetics Selection Evolution, Genetics Selection Evolution, BioMed Central, 2017, 49 (1), pp.62. ⟨10.1186/s12711-017-0337-y⟩, Genetics Selection Evolution, Vol 49, Iss 1, Pp 1-22 (2017), Genetics, Selection, Evolution : GSE
- Accession number :
- edsair.doi.dedup.....f7c29f410bcb476dc866816a83fbbfc6