Please use this identifier to cite or link to this item: https://hdl.handle.net/1959.11/14141
Title: The prediction of genetic structure of East African smallholder dairy cattle
Contributor(s): Weerasinghe, Shalanee (author); Gondro, Cedric  (author)orcid ; Jeyaruban, M Gilbert  (author); Mwai, O (author); Mjuibi, D F (author); Gibson, John  (author)
Publication Date: 2013
Handle Link: https://hdl.handle.net/1959.11/14141
Abstract: Identification of genetic structure and estimation of individual breed proportions in livestock species based on molecular data have become important tools in improvement of breeding programs in the developed world. In this study, we have applied high density SNP assays to understand genetic structure and breed composition of a developing world smallholder dairy system, which does not have pedigree records. Approximately 2000 East African smallholder crossbred dairy cattle were genotyped for 770k SNP. Principal component analysis (PCA) was used to identify the genetic structure and the ADMIXTURE program was used to estimate the proportional breed composition of individual animals. Genomic prediction and farmer prediction for breed proportions were compared. PCA revealed that the range of breed composition of smallholder dairy cattle is much larger than commonly believed. The correlation between breed proportion estimated using ADMIXTURE and the farmer's assessment of breed proportion was only 0.4, revealing that in this system farmers do not have a good understanding of the breed composition of their animals. This will be a problem to be overcome if farmers are to make optimum breeding choices to produce replacement heifers.
Publication Type: Conference Publication
Conference Name: 20th Conference of the Association for the Advancement of Animal Breeding and Genetics: Translating Science into Action, Napier, New Zealand, 20th - 23rd October, 2013
Conference Details: 20th Conference of the Association for the Advancement of Animal Breeding and Genetics: Translating Science into Action, Napier, New Zealand, 20th - 23rd October, 2013
Source of Publication: Proceedings of the Twentieth Conference of the Association for the Advancement of Animal Breeding and Genetics, p. 163-166
Publisher: AAABG: Association for the Advancement of Animal Breeding and Genetics
Place of Publication: Palmerston North, New Zealand
Field of Research (FOR): 060411 Population, Ecological and Evolutionary Genetics
Peer Reviewed: Yes
HERDC Category Description: E1 Refereed Scholarly Conference Publication
Other Links: http://www.aaabg.org/aaabghome/proceedings20.php
Series Name: Proceedings of the AAABG ... Conference
Series Number : 20
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Appears in Collections:Animal Genetics and Breeding Unit (AGBU)
Conference Publication

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