Please use this identifier to cite or link to this item: https://hdl.handle.net/1959.11/51474
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dc.contributor.authorDuijvesteijn, Naomien
dc.contributor.authorBolormaa, Sunduimijiden
dc.contributor.authorDaetwyler, Hans Den
dc.contributor.authorvan der Werf, Julius H Jen
dc.date.accessioned2022-03-25T03:12:03Z-
dc.date.available2022-03-25T03:12:03Z-
dc.date.issued2018-
dc.identifier.citationGenetics Selection Evolution, v.50, p. 1-11en
dc.identifier.issn1297-9686en
dc.identifier.issn0999-193Xen
dc.identifier.urihttps://hdl.handle.net/1959.11/51474-
dc.description.abstract<p> <b> Background: </b> In horned sheep breeds, breeding for polledness has been of interest for decades. The objective of this study was to improve prediction of the horned and polled phenotypes using horn scores classified as polled, scurs, knobs or horns. Derived phenotypes polled/non-polled (P/NP) and horned/non-horned (H/NH) were used to test four different strategies for prediction in 4001 purebred Merino sheep. These strategies include the use of single 'single nucleotide polymorphism' (SNP) genotypes, multiple-SNP haplotypes, genome-wide and chromosome-wide genomic best linear unbiased prediction and information from imputed sequence variants from the region including the <i>RXFP2</i> gene. Low-density genotypes of these animals were imputed to the Illumina Ovine high-density (600k) chip and the 1.78-kb insertion polymorphism in <i>RXFP2</i> was included in the imputation process to whole-genome sequence. We evaluated the mode of inheritance and validated models by a fivefold cross-validation and across- and between-family prediction. </p> <p> <b> Results: </b> The most significant SNPs for prediction of P/NP and H/NH were OAR10_29546872.1 and OAR10_29458450, respectively, located on chromosome 10 close to the 1.78-kb insertion at 29.5 Mb. The mode of inheritance included an additive effect and a sex-dependent effect for dominance for P/NP and a sex-dependent additive and dominance effect for H/NH. Models with the highest prediction accuracies for H/NH used either single SNPs or 3-SNP haplotypes and included a polygenic effect estimated based on traditional pedigree relationships. Prediction accuracies for H/ NH were 0.323 for females and 0.725 for males. For predicting P/NP, the best models were the same as for H/NH but included a genomic relationship matrix with accuracies of 0.713 for females and 0.620 for males. </p> <p> <b> Conclusions: </b> Our results show that prediction accuracy is high using a single SNP, but does not reach 1 since the causative mutation is not genotyped. Incomplete penetrance or allelic heterogeneity, which can influence expression of the phenotype, may explain why prediction accuracy did not approach 1 with any of the genetic models tested here. Nevertheless, a breeding program to eradicate horns from Merino sheep can be effective by selecting genotypes <i>GG</i> of SNP OAR10_29458450 or <i>TT</i> of SNP OAR10_29546872.1 since all sheep with these genotypes will be non-horned. </p>en
dc.languageenen
dc.publisherBioMed Central Ltden
dc.relation.ispartofGenetics Selection Evolutionen
dc.rightsAttribution 4.0 International*
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/*
dc.titleGenomic prediction of the polled and horned phenotypes in Merino sheepen
dc.typeJournal Articleen
dc.identifier.doi10.1186/s12711-018-0398-6en
dc.identifier.pmid29788905en
dcterms.accessRightsUNE Greenen
dc.subject.keywordsAgricultureen
dc.subject.keywordsAgriculture, Dairy & Animal Scienceen
dc.subject.keywordsGenetics & Heredityen
local.contributor.firstnameNaomien
local.contributor.firstnameSunduimijiden
local.contributor.firstnameHans Den
local.contributor.firstnameJulius H Jen
local.profile.schoolSchool of Environmental and Rural Scienceen
local.profile.schoolSchool of Environmental and Rural Scienceen
local.profile.emailnduijves@une.edu.auen
local.profile.emailjvanderw@une.edu.auen
local.output.categoryC1en
local.record.placeauen
local.record.institutionUniversity of New Englanden
local.publisher.placeUnited Kingdomen
local.identifier.runningnumber28en
local.format.startpage1en
local.format.endpage11en
local.identifier.scopusid85047466340en
local.peerreviewedYesen
local.identifier.volume50en
local.access.fulltextYesen
local.contributor.lastnameDuijvesteijnen
local.contributor.lastnameBolormaaen
local.contributor.lastnameDaetwyleren
local.contributor.lastnamevan der Werfen
dc.identifier.staffune-id:nduijvesen
dc.identifier.staffune-id:jvanderwen
local.profile.orcid0000-0003-2512-1696en
local.profile.roleauthoren
local.profile.roleauthoren
local.profile.roleauthoren
local.profile.roleauthoren
local.identifier.unepublicationidune:1959.11/51474en
local.date.onlineversion2018-05-22-
dc.identifier.academiclevelAcademicen
dc.identifier.academiclevelAcademicen
dc.identifier.academiclevelAcademicen
dc.identifier.academiclevelAcademicen
local.title.maintitleGenomic prediction of the polled and horned phenotypes in Merino sheepen
local.relation.fundingsourcenoteCooperative Research Centre for Sheep Industry Innovation, Meat Livestock Australia (MLA), SheepGENOMICS project, Sheep Genetics and Australian Wool Innovation (AWI)en
local.output.categorydescriptionC1 Refereed Article in a Scholarly Journalen
local.search.authorDuijvesteijn, Naomien
local.search.authorBolormaa, Sunduimijiden
local.search.authorDaetwyler, Hans Den
local.search.authorvan der Werf, Julius H Jen
local.open.fileurlhttps://rune.une.edu.au/web/retrieve/9cde66d1-17e4-4b0d-abec-41ef4d9cb671en
local.uneassociationYesen
local.atsiresearchNoen
local.sensitive.culturalNoen
local.identifier.wosid000433185000001en
local.year.available2018en
local.year.published2018en
local.fileurl.openhttps://rune.une.edu.au/web/retrieve/9cde66d1-17e4-4b0d-abec-41ef4d9cb671en
local.fileurl.openpublishedhttps://rune.une.edu.au/web/retrieve/9cde66d1-17e4-4b0d-abec-41ef4d9cb671en
local.subject.for2020310207 Statistical and quantitative geneticsen
local.subject.for2020300305 Animal reproduction and breedingen
local.subject.seo2020100413 Sheep for woolen
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School of Environmental and Rural Science
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