Distribution and location of genetic effects for dairy traits
John B. Cole,Paul M. VanRaden,Jeffrey R. O'Connell,C.P. Van Tassell,Tad S. Sonstegard,Robert D. Schnabel,Jeremy F. Taylor,G.R. Wiggans +7 more
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TLDR
A high-density scan using 38,416 single nucleotide polymorphism markers for 5,285 bulls confirmed 2 previously known major genes on Bos taurus autosomes (BTA) 6 and 14 but revealed few other large effects as discussed by the authors.About:
This article is published in Journal of Dairy Science.The article was published on 2009-06-01 and is currently open access. It has received 224 citations till now. The article focuses on the topics: Quantitative trait locus & Allele.read more
Citations
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Deregressed EBV as the response variable yield more reliable genomic predictions than traditional EBV in pure-bred pigs
TL;DR: Deregressed EBV is the preferred response variable, whereas the choice of statistical method is less critical for pure-bred pigs, since the reliabilities of the genomic breeding values directly affect the returns from genomic selection.
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Genome-wide Association Study Identifies Two Major Loci Affecting Calving Ease and Growth Related Traits in Cattle
Hubert Pausch,Krzysztof Flisikowski,Simone Jung,Reiner Emmerling,Christian Edel,Kay-Uwe Götz,Ruedi Fries +6 more
TL;DR: This study demonstrates the leverage potential of EBVs in unraveling the genetic architecture of lowly heritable traits as highly heritable phenotypes for paternal calving ease (pCE) and related traits.
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Identification of a Nonsense Mutation in CWC15 Associated with Decreased Reproductive Efficiency in Jersey Cattle
Tad S. Sonstegard,John B. Cole,Paul M. VanRaden,Curtis P. Van Tassell,Daniel J. Null,Steven G. Schroeder,Derek M. Bickhart,Matthew C. McClure +7 more
TL;DR: Whole-genome resequencing proved to be a powerful strategy to rapidly identify a previously mapped deleterious mutation in a known carrier of a recessive lethal allele, and shows that carrier status can be imputed with high accuracy.
Journal ArticleDOI
Comprehensive analyses of 723 transcriptomes enhance genetic and biological interpretations for complex traits in cattle
Lingzhao Fang,Wentao Cai,Wentao Cai,Shuli Liu,Shuli Liu,Oriol Canela-Xandri,Yahui Gao,Yahui Gao,Jicai Jiang,Konrad Rawlik,Bingjie Li,Steven G. Schroeder,Benjamin D. Rosen,Congjun Li,Tad S. Sonstegard,Leeson J. Alexander,Curtis P. Van Tassell,Paul M. VanRaden,John B. Cole,Ying Yu,Shengli Zhang,Albert Tenesa,Li Ma,George E. Liu +23 more
TL;DR: The results demonstrated that tissue-specific genes are significantly associated with the tissue-relevant biology, and the transcriptome atlas can serve as a primary source for biological interpretation, functional validation, studies of adaptive evolution, and genomic improvement in livestock.
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Multivariate analysis of a genome-wide association study in dairy cattle
TL;DR: The statistical power of detecting associations using multiple-traits GWAS was as good as or better than that of the best single-trait GWAS and did not appear to increase the precision with which putative QTL were mapped.
References
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Book
Introduction to quantitative genetics
TL;DR: The genetic constitution of a population: Hardy-Weinberg equilibrium and changes in gene frequency: migration mutation, changes of variance, and heritability are studied.
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Prediction of Total Genetic Value Using Genome-Wide Dense Marker Maps
TL;DR: It was concluded that selection on genetic values predicted from markers could substantially increase the rate of genetic gain in animals and plants, especially if combined with reproductive techniques to shorten the generation interval.
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Efficient Methods to Compute Genomic Predictions
TL;DR: Efficient methods for processing genomic data were developed to increase reliability of estimated breeding values and to estimate thousands of marker effects simultaneously, and a blend of first- and second-order Jacobi iteration using 2 separate relaxation factors converged well for allele frequencies and effects.
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Invited review: reliability of genomic predictions for North American Holstein bulls.
Paul M. VanRaden,C.P. Van Tassell,G.R. Wiggans,Tad S. Sonstegard,Robert D. Schnabel,Jeremy F. Taylor,Flavio S Schenkel +6 more
TL;DR: Genotypes for 38,416 markers and August 2003 genetic evaluations for 3,576 Holstein bulls born before 1999 were used to predict January 2008 daughter deviations and genomic prediction improves reliability by tracing the inheritance of genes even with small effects.