Issue |
Genet. Sel. Evol.
Volume 34, Number 1, January-February 2002
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Page(s) | 41 - 59 | |
DOI | https://doi.org/10.1051/gse:2001003 |
Genet. Sel. Evol. 34 (2002) 41-59
DOI: 10.1051/gse:2001003
Comparison between estimation of breeding values and fixed effects using Bayesian and empirical BLUP estimation under selection on parents and missing pedigree information
Flávio S. Schenkel, Lawrence R. Schaeffer and Paul J. BoettcherCentre for Genetic Improvement of Livestock, Animal and Poultry Science Department, University of Guelph, Guelph, Ontario, N1G 2W1 Canada
(Received 11 December 2000; accepted 2 July 2001)
Abstract
Bayesian (via Gibbs sampling) and empirical BLUP (EBLUP)
estimation of fixed effects and breeding values were compared by
simulation. Combinations of two simulation models (with or without
effect of contemporary group (CG)), three selection schemes (random,
phenotypic and BLUP selection), two levels of heritability (0.20 and
0.50) and two levels of pedigree information (0% and 15% randomly
missing) were considered. Populations consisted of 450 animals spread
over six discrete generations. An infinitesimal additive genetic
animal model was assumed while simulating data. EBLUP and Bayesian
estimates of CG effects and breeding values were, in all situations,
essentially the same with respect to Spearman's rank correlation
between true and estimated values. Bias and mean square error
(MSE) of EBLUP and Bayesian estimates of CG effects and
breeding values showed the same pattern over the range of simulated
scenarios. Methods were not biased by phenotypic and BLUP selection
when pedigree information was complete, albeit MSE of
estimated breeding values increased for situations where CG effects
were present. Estimation of breeding values by Bayesian and EBLUP was
similarly affected by joint effect of phenotypic or BLUP selection and
randomly missing pedigree information. For both methods, bias and
MSE of estimated breeding values and CG effects substantially
increased across generations.
Key words: breeding value / selection / Bayesian estimation / empirical BLUP / Gibbs sampling
Correspondence and reprints: Flávio S. Schenkel
e-mail: Schenkel@uoguelph.ca
© INRA, EDP Sciences 2002