Estimation of Pool Construction and Technical Error

Pooling animals with extreme phenotypes can improve the accuracy of genetic evaluation or provide genetic evaluation for novel traits at relatively low cost by exploiting large amounts of low-cost phenotypic data from animals in the commercial sector without pedigree (data from commercial ranches, f...

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Autores principales:	John Keele, Tara McDaneld, Ty Lawrence, Jenny Jennings, Larry Kuehn
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	DNA pooling genomic relationship genomic prediction Agriculture (General) S1-972
Acceso en línea:	https://doaj.org/article/27230e39404c4a32bb0571b319a1c9cf
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spelling	oai:doaj.org-article:27230e39404c4a32bb0571b319a1c9cf2021-11-25T15:59:03ZEstimation of Pool Construction and Technical Error10.3390/agriculture111110912077-0472https://doaj.org/article/27230e39404c4a32bb0571b319a1c9cf2021-11-01T00:00:00Zhttps://www.mdpi.com/2077-0472/11/11/1091https://doaj.org/toc/2077-0472Pooling animals with extreme phenotypes can improve the accuracy of genetic evaluation or provide genetic evaluation for novel traits at relatively low cost by exploiting large amounts of low-cost phenotypic data from animals in the commercial sector without pedigree (data from commercial ranches, feedlots, stocker grazing or processing plants). The average contribution of each animal to a pool is inversely proportional to the number of animals in the pool or pool size. We constructed pools with variable planned contributions from each animal to approximate errors with different numbers of animals per pool. We estimate pool construction error based on combining liver tissue, from pulverized frozen tissue mass from multiple animals, into eight sub-pools containing four animals with planned proportionality (1:2:3:4) by mass. Sub-pools were then extracted for DNA and genotyped using a commercial array. The extracted DNA from the sub-pools was used to form super pools based on DNA concentration as measured by spectrophotometry with planned contribution of sub-pools of 1:2:3:4. We estimate technical error by comparing estimated animal contribution using sub-samples of single nucleotide polymorphism (SNP). Overall, pool construction error increased with planned contribution of individual animals. Technical error in estimating animal contributions decreased with the number of SNP used.John KeeleTara McDaneldTy LawrenceJenny JenningsLarry KuehnMDPI AGarticleDNA poolinggenomic relationshipgenomic predictionAgriculture (General)S1-972ENAgriculture, Vol 11, Iss 1091, p 1091 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	DNA pooling genomic relationship genomic prediction Agriculture (General) S1-972
spellingShingle	DNA pooling genomic relationship genomic prediction Agriculture (General) S1-972 John Keele Tara McDaneld Ty Lawrence Jenny Jennings Larry Kuehn Estimation of Pool Construction and Technical Error
description	Pooling animals with extreme phenotypes can improve the accuracy of genetic evaluation or provide genetic evaluation for novel traits at relatively low cost by exploiting large amounts of low-cost phenotypic data from animals in the commercial sector without pedigree (data from commercial ranches, feedlots, stocker grazing or processing plants). The average contribution of each animal to a pool is inversely proportional to the number of animals in the pool or pool size. We constructed pools with variable planned contributions from each animal to approximate errors with different numbers of animals per pool. We estimate pool construction error based on combining liver tissue, from pulverized frozen tissue mass from multiple animals, into eight sub-pools containing four animals with planned proportionality (1:2:3:4) by mass. Sub-pools were then extracted for DNA and genotyped using a commercial array. The extracted DNA from the sub-pools was used to form super pools based on DNA concentration as measured by spectrophotometry with planned contribution of sub-pools of 1:2:3:4. We estimate technical error by comparing estimated animal contribution using sub-samples of single nucleotide polymorphism (SNP). Overall, pool construction error increased with planned contribution of individual animals. Technical error in estimating animal contributions decreased with the number of SNP used.
format	article
author	John Keele Tara McDaneld Ty Lawrence Jenny Jennings Larry Kuehn
author_facet	John Keele Tara McDaneld Ty Lawrence Jenny Jennings Larry Kuehn
author_sort	John Keele
title	Estimation of Pool Construction and Technical Error
title_short	Estimation of Pool Construction and Technical Error
title_full	Estimation of Pool Construction and Technical Error
title_fullStr	Estimation of Pool Construction and Technical Error
title_full_unstemmed	Estimation of Pool Construction and Technical Error
title_sort	estimation of pool construction and technical error
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/27230e39404c4a32bb0571b319a1c9cf
work_keys_str_mv	AT johnkeele estimationofpoolconstructionandtechnicalerror AT taramcdaneld estimationofpoolconstructionandtechnicalerror AT tylawrence estimationofpoolconstructionandtechnicalerror AT jennyjennings estimationofpoolconstructionandtechnicalerror AT larrykuehn estimationofpoolconstructionandtechnicalerror
_version_	1718413368910413824

Estimation of Pool Construction and Technical Error

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