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On estimation and identifiability issues of sex-linked inheritance with a case study of pigmentation in Swiss barn owl (Tyto alba)

Genetic evaluation using animal models or pedigree-based models generally assume only autosomal inheritance. Bayesian animal models provide a flexible framework for genetic evaluation, and we show how the model readily can accommodate situations where the trait of interest is influenced by both auto...

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Autores principales: Larsen, Camilla T, Holand, Anna M, Jensen, Henrik, Steinsland, Ingelin, Roulin, Alexandre
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BlackWell Publishing Ltd 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4063458/
https://www.ncbi.nlm.nih.gov/pubmed/24967075
http://dx.doi.org/10.1002/ece3.1032
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author Larsen, Camilla T
Holand, Anna M
Jensen, Henrik
Steinsland, Ingelin
Roulin, Alexandre
author_facet Larsen, Camilla T
Holand, Anna M
Jensen, Henrik
Steinsland, Ingelin
Roulin, Alexandre
author_sort Larsen, Camilla T
collection PubMed
description Genetic evaluation using animal models or pedigree-based models generally assume only autosomal inheritance. Bayesian animal models provide a flexible framework for genetic evaluation, and we show how the model readily can accommodate situations where the trait of interest is influenced by both autosomal and sex-linked inheritance. This allows for simultaneous calculation of autosomal and sex-chromosomal additive genetic effects. Inferences were performed using integrated nested Laplace approximations (INLA), a nonsampling-based Bayesian inference methodology. We provide a detailed description of how to calculate the inverse of the X- or Z-chromosomal additive genetic relationship matrix, needed for inference. The case study of eumelanic spot diameter in a Swiss barn owl (Tyto alba) population shows that this trait is substantially influenced by variation in genes on the Z-chromosome ([Image: see text] and [Image: see text]). Further, a simulation study for this study system shows that the animal model accounting for both autosomal and sex-chromosome-linked inheritance is identifiable, that is, the two effects can be distinguished, and provides accurate inference on the variance components.
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spelling pubmed-40634582014-06-25 On estimation and identifiability issues of sex-linked inheritance with a case study of pigmentation in Swiss barn owl (Tyto alba) Larsen, Camilla T Holand, Anna M Jensen, Henrik Steinsland, Ingelin Roulin, Alexandre Ecol Evol Original Research Genetic evaluation using animal models or pedigree-based models generally assume only autosomal inheritance. Bayesian animal models provide a flexible framework for genetic evaluation, and we show how the model readily can accommodate situations where the trait of interest is influenced by both autosomal and sex-linked inheritance. This allows for simultaneous calculation of autosomal and sex-chromosomal additive genetic effects. Inferences were performed using integrated nested Laplace approximations (INLA), a nonsampling-based Bayesian inference methodology. We provide a detailed description of how to calculate the inverse of the X- or Z-chromosomal additive genetic relationship matrix, needed for inference. The case study of eumelanic spot diameter in a Swiss barn owl (Tyto alba) population shows that this trait is substantially influenced by variation in genes on the Z-chromosome ([Image: see text] and [Image: see text]). Further, a simulation study for this study system shows that the animal model accounting for both autosomal and sex-chromosome-linked inheritance is identifiable, that is, the two effects can be distinguished, and provides accurate inference on the variance components. BlackWell Publishing Ltd 2014-05 2014-03-29 /pmc/articles/PMC4063458/ /pubmed/24967075 http://dx.doi.org/10.1002/ece3.1032 Text en © 2014 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd. http://creativecommons.org/licenses/by/3.0/ This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Original Research
Larsen, Camilla T
Holand, Anna M
Jensen, Henrik
Steinsland, Ingelin
Roulin, Alexandre
On estimation and identifiability issues of sex-linked inheritance with a case study of pigmentation in Swiss barn owl (Tyto alba)
title On estimation and identifiability issues of sex-linked inheritance with a case study of pigmentation in Swiss barn owl (Tyto alba)
title_full On estimation and identifiability issues of sex-linked inheritance with a case study of pigmentation in Swiss barn owl (Tyto alba)
title_fullStr On estimation and identifiability issues of sex-linked inheritance with a case study of pigmentation in Swiss barn owl (Tyto alba)
title_full_unstemmed On estimation and identifiability issues of sex-linked inheritance with a case study of pigmentation in Swiss barn owl (Tyto alba)
title_short On estimation and identifiability issues of sex-linked inheritance with a case study of pigmentation in Swiss barn owl (Tyto alba)
title_sort on estimation and identifiability issues of sex-linked inheritance with a case study of pigmentation in swiss barn owl (tyto alba)
topic Original Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4063458/
https://www.ncbi.nlm.nih.gov/pubmed/24967075
http://dx.doi.org/10.1002/ece3.1032
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