Genetic heterogeneity of residual variance - estimation of variance components using double hierarchical generalized linear models

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Rönnegård, LarsHögskolan Dalarna,Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för husdjursgenetik (HGEN),Department of Animal Breeding and Genetics,Dalarna University,Statistik (author)

Genetic heterogeneity of residual variance - estimation of variance components using double hierarchical generalized linear models

Article/chapterEnglish2010

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2010-03-19
Springer Science and Business Media LLC,2010

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LIBRIS-ID:oai:slubar.slu.se:59828
https://res.slu.se/id/publ/59828URI
https://doi.org/10.1186/1297-9686-42-8DOI
https://urn.kb.se/resolve?urn=urn:nbn:se:du-10497URI

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Language:English
Summary in:English

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Subject category:ref swepub-contenttype
Subject category:art swepub-publicationtype

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Background: The sensitivity to microenvironmental changes varies among animals and may be under genetic control. It is essential to take this element into account when aiming at breeding robust farm animals. Here, linear mixed models with genetic effects in the residual variance part of the model can be used. Such models have previously been fitted using EM and MCMC algorithms.Results: We propose the use of double hierarchical generalized linear models (DHGLM), where the squared residuals are assumed to be gamma distributed and the residual variance is fitted using a generalized linear model. The algorithm iterates between two sets of mixed model equations, one on the level of observations and one on the level of variances. The method was validated using simulations and also by re-analyzing a data set on pig litter size that was previously analyzed using a Bayesian approach. The pig litter size data contained 10,060 records from 4,149 sows. The DHGLM was implemented using the ASReml software and the algorithm converged within three minutes on a Linux server. The estimates were similar to those previously obtained using Bayesian methodology, especially the variance components in the residual variance part of the model.Conclusions: We have shown that variance components in the residual variance part of a linear mixed model can be estimated using a DHGLM approach. The method enables analyses of animal models with large numbers of observations. An important future development of the DHGLM methodology is to include the genetic correlation between the random effects in the mean and residual variance parts of the model as a parameter of the DHGLM.

Subject headings and genre

LANTBRUKSVETENSKAPER Husdjursvetenskap hsv//swe
AGRICULTURAL SCIENCES Animal and Dairy Sience hsv//eng
LANTBRUKSVETENSKAPER Veterinärmedicin hsv//swe
AGRICULTURAL SCIENCES Veterinary Science hsv//eng
LANTBRUKSVETENSKAPER Bioteknologi med applikationer på växter och djur Genetik och förädling inom lantbruksvetenskap hsv//swe
AGRICULTURAL SCIENCES Agricultural Biotechnology Genetics and Breeding in Agricultural Sciences hsv//eng
NATURVETENSKAP Matematik Sannolikhetsteori och statistik hsv//swe
NATURAL SCIENCES Mathematics Probability Theory and Statistics hsv//eng
Statistisk modellering är grunden till en ökad förståelse inom genetik!

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Felleki, MajbrittHögskolan Dalarna,Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för husdjursgenetik (HGEN),Department of Animal Breeding and Genetics,Dalarna University,Statistik(Swepub:du)mfl (author)
Fikse, FreddySwedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för husdjursgenetik (HGEN),Department of Animal Breeding and Genetics(Swepub:slu)49491 (author)
Strandberg, ErlingSwedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för husdjursgenetik (HGEN),Department of Animal Breeding and Genetics(Swepub:slu)50400 (author)
Mulder, Herman A. (author)
Sveriges lantbruksuniversitetInstitutionen för husdjursgenetik (HGEN) (creator_code:org_t)
Sveriges lantbruksuniversitet

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AGRICULTURAL SCIENCES: AGRICULTURAL SCI ...; and Animal and Dairy ...

AGRICULTURAL SCIENCES: AGRICULTURAL SCI ...; and Veterinary Scien ...

AGRICULTURAL SCIENCES: AGRICULTURAL SCI ...; and Agricultural Bio ...; and Genetics and Bre ...

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