Commercial implementation of genomic selection in Tasmanian Atlantic salmon: Scheme evolution and validation
Genomic information was included for the first time in the prediction of breeding values for Atlantic salmon within the Australian Salmon Enterprises of Tasmania Pty Ltd selective breeding program in 2016. The process to realize genomic selection in the breeding program begun in 2014 with the scheme...
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ftpubmed:oai:pubmedcentral.nih.gov:9046822 2023-05-15T15:30:55+02:00 Commercial implementation of genomic selection in Tasmanian Atlantic salmon: Scheme evolution and validation Verbyla, Klara L. Kube, Peter D. Evans, Bradley S. 2021-10-11 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9046822/ http://www.ncbi.nlm.nih.gov/pubmed/35505884 https://doi.org/10.1111/eva.13304 en eng John Wiley and Sons Inc. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9046822/ http://www.ncbi.nlm.nih.gov/pubmed/35505884 http://dx.doi.org/10.1111/eva.13304 © 2021 The Authors. Evolutionary Applications published by John Wiley & Sons Ltd. https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. CC-BY Evol Appl Special Issue Original Articles Text 2021 ftpubmed https://doi.org/10.1111/eva.13304 2022-05-08T00:44:40Z Genomic information was included for the first time in the prediction of breeding values for Atlantic salmon within the Australian Salmon Enterprises of Tasmania Pty Ltd selective breeding program in 2016. The process to realize genomic selection in the breeding program begun in 2014 with the scheme finalized and fully implemented for the first time in 2018. The high potential of within family selection to accelerate genetic gain, something not possible using the traditional pedigree‐based approach, provided the impetus for implementation. Efficient and effective genotyping platforms are essential for genomic selection. Genotype data from high density arrays revealed extensive persistence of linkage disequilibrium in the Tasmania Atlantic salmon population, resulting in high accuracies of both imputation and genomic breeding values when using imputed data. Consequently, a low‐density novel genotype‐by‐sequence assay was designed and incorporated into the scheme. Through the use of a static high‐ and dynamic low‐density genotyping platforms, an optimized genotyping scheme was devised and implemented such that all individuals in every year class are genotyped efficiently while maximizing the genetic gains and minimizing costs. The increase in the rates of genetic gain attributed to the implementation of genomic selection is significant across both the breeding programs primary and secondary traits. Substantial improvement in the ability to select parents prior to progeny testing is observed across multiple years. The resultant economic impacts for the industry are considerable based on the increases in genetic gain for traits achieved within the breeding program and the use of genomic selection for commercial production. Text Atlantic salmon PubMed Central (PMC) Evolutionary Applications 15 4 631 644 |
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Special Issue Original Articles Verbyla, Klara L. Kube, Peter D. Evans, Bradley S. Commercial implementation of genomic selection in Tasmanian Atlantic salmon: Scheme evolution and validation |
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Special Issue Original Articles |
description |
Genomic information was included for the first time in the prediction of breeding values for Atlantic salmon within the Australian Salmon Enterprises of Tasmania Pty Ltd selective breeding program in 2016. The process to realize genomic selection in the breeding program begun in 2014 with the scheme finalized and fully implemented for the first time in 2018. The high potential of within family selection to accelerate genetic gain, something not possible using the traditional pedigree‐based approach, provided the impetus for implementation. Efficient and effective genotyping platforms are essential for genomic selection. Genotype data from high density arrays revealed extensive persistence of linkage disequilibrium in the Tasmania Atlantic salmon population, resulting in high accuracies of both imputation and genomic breeding values when using imputed data. Consequently, a low‐density novel genotype‐by‐sequence assay was designed and incorporated into the scheme. Through the use of a static high‐ and dynamic low‐density genotyping platforms, an optimized genotyping scheme was devised and implemented such that all individuals in every year class are genotyped efficiently while maximizing the genetic gains and minimizing costs. The increase in the rates of genetic gain attributed to the implementation of genomic selection is significant across both the breeding programs primary and secondary traits. Substantial improvement in the ability to select parents prior to progeny testing is observed across multiple years. The resultant economic impacts for the industry are considerable based on the increases in genetic gain for traits achieved within the breeding program and the use of genomic selection for commercial production. |
format |
Text |
author |
Verbyla, Klara L. Kube, Peter D. Evans, Bradley S. |
author_facet |
Verbyla, Klara L. Kube, Peter D. Evans, Bradley S. |
author_sort |
Verbyla, Klara L. |
title |
Commercial implementation of genomic selection in Tasmanian Atlantic salmon: Scheme evolution and validation |
title_short |
Commercial implementation of genomic selection in Tasmanian Atlantic salmon: Scheme evolution and validation |
title_full |
Commercial implementation of genomic selection in Tasmanian Atlantic salmon: Scheme evolution and validation |
title_fullStr |
Commercial implementation of genomic selection in Tasmanian Atlantic salmon: Scheme evolution and validation |
title_full_unstemmed |
Commercial implementation of genomic selection in Tasmanian Atlantic salmon: Scheme evolution and validation |
title_sort |
commercial implementation of genomic selection in tasmanian atlantic salmon: scheme evolution and validation |
publisher |
John Wiley and Sons Inc. |
publishDate |
2021 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9046822/ http://www.ncbi.nlm.nih.gov/pubmed/35505884 https://doi.org/10.1111/eva.13304 |
genre |
Atlantic salmon |
genre_facet |
Atlantic salmon |
op_source |
Evol Appl |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9046822/ http://www.ncbi.nlm.nih.gov/pubmed/35505884 http://dx.doi.org/10.1111/eva.13304 |
op_rights |
© 2021 The Authors. Evolutionary Applications published by John Wiley & Sons Ltd. https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.1111/eva.13304 |
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Evolutionary Applications |
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15 |
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4 |
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631 |
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644 |
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