Please use this identifier to cite or link to this item: https://hdl.handle.net/1959.11/22928
Title: SNP-Panel Design for Dairy Proportion Estimation and Parentage Testing
Contributor(s): Strucken, Eva  (author)orcid ; Esquivelzeta-Rabell, Cecilia (author); Al-Mamun, Hawlader A (author); Gondro, Cedric (author); Mwai, Okeyo (author); Gibson, John  (author)orcid 
Publication Date: 2017
Open Access: Yes
Handle Link: https://hdl.handle.net/1959.11/22928
Open Access Link: http://agbu.une.edu.au/AAABG%202017/100Strucken22437.pdfOpen Access Link
Abstract: The selection of small numbers of SNPs to analyse population features is an important task in the livestock industry. Populations differ in their genetic architecture, which often requires the selection of population specific SNPs. Different tasks, such as breed proportion prediction or parentage testing, also require specific panels. We tested which selection methods are best for breed proportion estimation and parentage testing in a crossbred dairy population from East Africa. We selected SNPs from a 735k SNP panel (Illumina) based on several methods:a) high minor allele frequencies; b) high allele frequency differences between ancestral populations; c) at random; d) with a differential evolution algorithm. Estimates of breed proportions in the subsets were tested against true breed proportions based on all 770k SNP obtained from ADMIXTURE. Parentage assignments was based on opposing homozygotes. Panels selected for largest allele frequency differences in ancestral populations gave best results for breed proportion predictions and panels selected for highest minor allele frequency gave best parentage resolution.
Publication Type: Conference Publication
Conference Details: AAABG 2017: 22nd Conference of the Association for the Advancement of Animal Breeding and Genetics, Townsville, Australia, 2nd - 5th July, 2017
Source of Publication: Proceedings of the Association for the Advancement of Animal Breeding and Genetics, v.22, p. 437-440
Publisher: Association for the Advancement of Animal Breeding and Genetics (AAABG)
Place of Publication: Armidale, Australia
ISSN: 1328-3227
Fields of Research (FoR) 2008: 070201 Animal Breeding
Fields of Research (FoR) 2020: 300305 Animal reproduction and breeding
Socio-Economic Objective (SEO) 2008: 839899 Environmentally Sustainable Animal Production not elsewhere classified
Socio-Economic Objective (SEO) 2020: 100199 Environmentally sustainable animal production not elsewhere classified
Peer Reviewed: Yes
HERDC Category Description: E1 Refereed Scholarly Conference Publication
Appears in Collections:Conference Publication
School of Environmental and Rural Science

Files in This Item:
2 files
File Description SizeFormat 
Show full item record

Page view(s)

1,914
checked on Mar 10, 2024

Download(s)

2
checked on Mar 10, 2024
Google Media

Google ScholarTM

Check


Items in Research UNE are protected by copyright, with all rights reserved, unless otherwise indicated.