Efficient Methods to Compute Genomic Predictions
TLDR
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.About:
This article is published in Journal of Dairy Science.The article was published on 2008-11-01 and is currently open access. It has received 4196 citations till now. The article focuses on the topics: Best linear unbiased prediction & Allele frequency.read more
Citations
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Journal ArticleDOI
Detection and validation of genomic regions associated with resistance to rust diseases in a worldwide hexaploid wheat landrace collection using BayesR and mixed linear model approaches
Raj K. Pasam,Urmil Bansal,Hans D. Daetwyler,Kerrie Forrest,Debbie Wong,Joanna Petkowski,Nicholas Willey,Nicholas Willey,Mandeep S. Randhawa,Mandeep S. Randhawa,Mumta Chhetri,Hanif Miah,Josquin Tibbits,Harbans Bariana,Matthew J. Hayden +14 more
TL;DR: The results demonstrate that pre-Green Revolution landraces provide a rich source of genes to increase genetic diversity for rust resistance to facilitate the development of wheat varieties with more durable rust resistance.
Journal ArticleDOI
Genomic prediction for hastening and improving efficiency of forward selection in conifer polycross mating designs: an example from white spruce
Patrick Lenz,Patrick Lenz,Simon Nadeau,Aïda Azaiez,Sébastien Gérardi,Marie Deslauriers,Martin Perron,Nathalie Isabel,Nathalie Isabel,Jean Beaulieu,Jean Bousquet +10 more
TL;DR: Considering the operational advantages of the polycross design in terms of easier handling of crosses and lower associated costs for test establishment, it is believed that this mating scheme offers great opportunities for the development and operational application of forward GS.
Journal ArticleDOI
A nonsense mutation in PLD4 is associated with a zinc deficiency-like syndrome in Fleckvieh cattle
Simone Jung,Hubert Pausch,Martin C Langenmayer,H. Schwarzenbacher,Monir Majzoub-Altweck,N.S. Gollnick,Ruedi Fries +6 more
TL;DR: The results provide strong evidence that a newly identified recessive disorder in the Fleckvieh population is caused by a nonsense mutation in PLD4, most likely resulting in an impaired function of the encoded protein.
Journal ArticleDOI
Genomic prediction accounting for genotype by environment interaction offers an effective framework for breeding simultaneously for adaptation to an abiotic stress and performance under normal cropping conditions in rice.
TL;DR: The first study exploring the feasibility of breeding rice for adaptation to alternate wetting and drying using genomic prediction methods that account for genotype by environment interactions reports that the predictive ability of multi-environment models predicting unobserved phenotypes of entrees evaluated under both water management systems outperformed single environment models.
Book ChapterDOI
Detection of Signatures of Selection Using F ST
TL;DR: This chapter discusses a straightforward protocol based on the F ST statistic to identify genomic regions that exhibit high variation in allelic frequency between groups, which is a characteristic of genomic areas that have gone through differential selection.
References
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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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Coefficients of Inbreeding and Relationship
TL;DR: The importance of having a coefficient by means of which the degree of inbreeding may be expressed has been brought out by Pearl' in a number of papers published between 1913 and 1917.
Journal ArticleDOI
Strategy for applying genome-wide selection in dairy cattle.
TL;DR: Genome-wide selection may become a popular tool for genetic improvement in livestock after a strategy that utilizes these advantages was compared with a traditional progeny testing strategy under a typical Canadian-like dairy cattle situation.
Journal ArticleDOI
Derivation, calculation, and use of national animal model information.
Paul M. VanRaden,G.R. Wiggans +1 more
TL;DR: New terms and definitions were developed to explain national USDA genetic evaluations computed by an animal model, whereiability is the squared correlation of predicted and true transmitting ability.
Journal ArticleDOI
Accuracy of Genomic Selection Using Different Methods to Define Haplotypes
TL;DR: It was concluded that genomic selection is considerably more accurate than traditional selection, especially for a low-heritability trait.