Katrijn Peeters1, Esther Dorien Ellen, Piter Bijma. 1. Animal Breeding and Genomics Centre, Wageningen University, P,O, Box 338, 6700 AH Wageningen, The Netherlands. katrijn.peeters@wur.nl.
Abstract
BACKGROUND: Through social interactions, individuals affect one another's phenotype. In such cases, an individual's phenotype is affected by the direct (genetic) effect of the individual itself and the indirect (genetic) effects of the group mates. Using data on individual phenotypes, direct and indirect genetic (co)variances can be estimated. Together, they compose the total genetic variance that determines a population's potential to respond to selection. However, it can be difficult or expensive to obtain individual phenotypes. Phenotypes on traits such as egg production and feed intake are, therefore, often collected on group level. In this study, we investigated whether direct, indirect and total genetic variances, and breeding values can be estimated from pooled data (pooled by group). In addition, we determined the optimal group composition, i.e. the optimal number of families represented in a group to minimise the standard error of the estimates. METHODS: This study was performed in three steps. First, all research questions were answered by theoretical derivations. Second, a simulation study was conducted to investigate the estimation of variance components and optimal group composition. Third, individual and pooled survival records on 12 944 purebred laying hens were analysed to investigate the estimation of breeding values and response to selection. RESULTS: Through theoretical derivations and simulations, we showed that the total genetic variance can be estimated from pooled data, but the underlying direct and indirect genetic (co)variances cannot. Moreover, we showed that the most accurate estimates are obtained when group members belong to the same family. Additional theoretical derivations and data analyses on survival records showed that the total genetic variance and breeding values can be estimated from pooled data. Moreover, the correlation between the estimated total breeding values obtained from individual and pooled data was surprisingly close to one. This indicates that, for survival in purebred laying hens, loss in response to selection will be small when using pooled instead of individual data. CONCLUSIONS: Using pooled data, the total genetic variance and breeding values can be estimated, but the underlying genetic components cannot. The most accurate estimates are obtained when group members belong to the same family.
BACKGROUND: Through social interactions, individuals affect one another's phenotype. In such cases, an individual's phenotype is affected by the direct (genetic) effect of the individual itself and the indirect (genetic) effects of the group mates. Using data on individual phenotypes, direct and indirect genetic (co)variances can be estimated. Together, they compose the total genetic variance that determines a population's potential to respond to selection. However, it can be difficult or expensive to obtain individual phenotypes. Phenotypes on traits such as egg production and feed intake are, therefore, often collected on group level. In this study, we investigated whether direct, indirect and total genetic variances, and breeding values can be estimated from pooled data (pooled by group). In addition, we determined the optimal group composition, i.e. the optimal number of families represented in a group to minimise the standard error of the estimates. METHODS: This study was performed in three steps. First, all research questions were answered by theoretical derivations. Second, a simulation study was conducted to investigate the estimation of variance components and optimal group composition. Third, individual and pooled survival records on 12 944 purebred laying hens were analysed to investigate the estimation of breeding values and response to selection. RESULTS: Through theoretical derivations and simulations, we showed that the total genetic variance can be estimated from pooled data, but the underlying direct and indirect genetic (co)variances cannot. Moreover, we showed that the most accurate estimates are obtained when group members belong to the same family. Additional theoretical derivations and data analyses on survival records showed that the total genetic variance and breeding values can be estimated from pooled data. Moreover, the correlation between the estimated total breeding values obtained from individual and pooled data was surprisingly close to one. This indicates that, for survival in purebred laying hens, loss in response to selection will be small when using pooled instead of individual data. CONCLUSIONS: Using pooled data, the total genetic variance and breeding values can be estimated, but the underlying genetic components cannot. The most accurate estimates are obtained when group members belong to the same family.
Authors: Nicolas Bedere; Tom V L Berghof; Katrijn Peeters; Marie-Hélène Pinard-van der Laan; Jeroen Visscher; Ingrid David; Han A Mulder Journal: Genet Sel Evol Date: 2022-04-20 Impact factor: 5.100
Authors: Esther D Ellen; T Bas Rodenburg; Gerard A A Albers; J Elizabeth Bolhuis; Irene Camerlink; Naomi Duijvesteijn; Egbert F Knol; William M Muir; Katrijn Peeters; Inonge Reimert; Ewa Sell-Kubiak; Johan A M van Arendonk; Jeroen Visscher; Piter Bijma Journal: Front Genet Date: 2014-11-11 Impact factor: 4.599
Authors: Setegn W Alemu; Mario P L Calus; William M Muir; Katrijn Peeters; Addie Vereijken; Piter Bijma Journal: Genet Sel Evol Date: 2016-09-13 Impact factor: 4.297
Authors: Guosheng Su; Per Madsen; Bjarne Nielsen; Tage Ostersen; Mahmoud Shirali; Just Jensen; Ole F Christensen Journal: Genet Sel Evol Date: 2018-08-14 Impact factor: 4.297