GSEVM v.2: MCMC software to analyze genetically structured environmental variance models

Ibáñez‐Escriche, Noelia; Garcia, María de la Luz; Sörensen, Daniel

doi:10.1111/j.1439-0388.2009.00846.x

Cited by 22 publications

(17 citation statements)

References 12 publications

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“…. A free software called GSEVM is available for this approach (Ibáñez-Escriche, Garcia, & Sorensen, 2010). Some comparisons between Bayesian and REML approaches have been performed.…”

Section: Estimate Genetic Variation In Residual Variancementioning

confidence: 99%

Genetics and genomics of uniformity and resilience in livestock and aquaculture species: A review

Iung

Carvalheiro

Neves³

et al. 2019

J Animal Breeding Genetics

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Genetic control of residual variance offers opportunities to increase uniformity and resilience of livestock and aquaculture species. Improving uniformity and resilience of animals will improve health and welfare of animals and lead to more homogenous products. Our aims in this review were to summarize the current models and methods to study genetic control of residual variance, genetic parameters and genomic results for residual variance and discuss future research directions. Typically, the genetic coefficient of variation is high (median = 0.27; range 0-0.86) and the heritability of residual variance is low (median = 0.01; range 0-0.10). Higher heritabilities can be achieved when increasing the number of records per animal. Divergent selection experiments have supported the feasibility of selecting for high or low residual variance. Genomic studies have revealed associations in regions related to stress, including those from the heat shock protein family. Although the number of studies is growing, genetic control of residual variance is still poorly understood, but big data and genomics offer great opportunities. K E Y W O R D Sgenetic control of residual variance, genetic heterogeneity of residual variance, micro-environmental sensitivity, resilience, uniformity 264 | IUNG et al.

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“…. A free software called GSEVM is available for this approach (Ibáñez-Escriche, Garcia, & Sorensen, 2010). Some comparisons between Bayesian and REML approaches have been performed.…”

Section: Estimate Genetic Variation In Residual Variancementioning

confidence: 99%

Genetics and genomics of uniformity and resilience in livestock and aquaculture species: A review

Iung

Carvalheiro

Neves³

et al. 2019

J Animal Breeding Genetics

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“…A genetic background affecting the variability of a trait, which is different from that controlling the trait mean, would enable a genetic selection on the variability of a trait by reducing it and reach homogeneity of the trait (Scheiner & Lyman 1991). One way to achieve this could be using the GSEVM software (Ib añez-Escriche et al 2010) that fits the model developed by SanCristobal-Gaudy et al (1998), which can simultaneously determine the genetic parameters for the mean and for the environmental variability and their correspondent breeding values.…”

Section: Introductionmentioning

confidence: 99%

Genetic control of the environmental variance for birth weight in seven generations of a divergent selection experiment in mice

García-Rebollar¹,

Cervantes²,

Ibáñez‐Escriche

et al. 2015

J Animal Breeding Genetics

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Data from seven generations of a divergent selection experiment designed for environmental variability of birth weight were analysed to estimate genetic parameters and to explore signs of selection response. A total of 10 783 birth weight records from 638 females and 1127 litters in combination with 10 007 pedigree records were used. Each record of birth weight was assigned to the mother of the pup in a heteroscedastic model, and after seven generations of selection, evidence of success in the selection process was shown. A Bayesian analysis showed that success of the selection process started from the first generation for birth weight and from the second generation for its environmental variability. Genetic parameters were estimated across generations. However, only from the third generation onwards were the records useful to consider the results to be reliable. The results showed a consistent positive and low genetic correlation between the birth weight trait and its environmental variability, which could allow an independent selection process. This study has demonstrated that the genetic control of the birth weight environmental variability is possible in mice. Nevertheless, before the results are applied directly in farm animals, it would be worth confirming any other implications on other important traits, such as robustness, longevity and welfare.

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“…A free software is also available to implement such models under a Bayesian framework [10]. However, computing time and estimability problems may hamper the use of this approach in some cases.…”

Section: Introductionmentioning

confidence: 99%

Genetic and environmental heterogeneity of residual variance of weight traits in Nellore beef cattle

Neves

Carvalheiro²,

Queiroz

2012

Genet Sel Evol

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BackgroundMany studies have provided evidence of the existence of genetic heterogeneity of environmental variance, suggesting that it could be exploited to improve robustness and uniformity of livestock by selection. However, little is known about the perspectives of such a selection strategy in beef cattle.MethodsA two-step approach was applied to study the genetic heterogeneity of residual variance of weight gain from birth to weaning and long-yearling weight in a Nellore beef cattle population. First, an animal model was fitted to the data and second, the influence of additive and environmental effects on the residual variance of these traits was investigated with different models, in which the log squared estimated residuals for each phenotypic record were analyzed using the restricted maximum likelihood method. Monte Carlo simulation was performed to assess the reliability of variance component estimates from the second step and the accuracy of estimated breeding values for residual variation.ResultsThe results suggest that both genetic and environmental factors have an effect on the residual variance of weight gain from birth to weaning and long-yearling in Nellore beef cattle and that uniformity of these traits could be improved by selecting for lower residual variance, when considering a large amount of information to predict genetic merit for this criterion. Simulations suggested that using the two-step approach would lead to biased estimates of variance components, such that more adequate methods are needed to study the genetic heterogeneity of residual variance in beef cattle.

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GSEVM v.2: MCMC software to analyze genetically structured environmental variance models

Cited by 22 publications

References 12 publications

Genetics and genomics of uniformity and resilience in livestock and aquaculture species: A review

Genetics and genomics of uniformity and resilience in livestock and aquaculture species: A review

Genetic control of the environmental variance for birth weight in seven generations of a divergent selection experiment in mice

Genetic and environmental heterogeneity of residual variance of weight traits in Nellore beef cattle

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