Admixture study of Ongole grade cattle based on genome-wide SNP data

We present population structure analysis of two differed Ongole grade cattle strains in Indonesia i.e., common Ongole grade (PO) and Kebumen Ongole grade (PO Kebumen). The aim of this study was to identify the genomic characteristic of both PO and PO Kebumen cattle strains. In this study, genotyping...

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Bibliographic Details
Published in:IOP conference series. Earth and environmental science 2021-05, Vol.762 (1), p.12047
Main Authors: Volkandari, S D, Rahmawati, I, Cahyadi, M, Adinata, Y, Kusumaningrum, R, Maharani, D, Purwantara, B, Subiharta, Sudrajad, P
Format: Article
Language:English
Subjects:
Cattle
Genetic distance
Genotyping
Heterozygosity
Population genetics
Population structure
Population studies
Single-nucleotide polymorphism
Strains (organisms)
Structural analysis
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Summary:We present population structure analysis of two differed Ongole grade cattle strains in Indonesia i.e., common Ongole grade (PO) and Kebumen Ongole grade (PO Kebumen). The aim of this study was to identify the genomic characteristic of both PO and PO Kebumen cattle strains. In this study, genotyping method of 15 PO and 25 PO Kebumen was carried out using an Illumina BovineSNP50 Bead Chip. In order to deeper analyses, we used additional 50K SNP data of 20 PO, 20 Nellore, 20 Brahman, 20 Simmental, and 20 Limousin that freely available in the data repositories. An estimation of the genetic population study was carried out using following approaches: pairwise fixation indices, heterozygosity and Nei’s standard genetic distance, and ancestral based admixture. These analyses revealed a B. taurus influence in PO but none in PO Kebumen. Furthermore, we also identified the close admixture of PO Kebumen to Nellore. Since Nellore was originated from Ongole cattle, we presume the PO Kebumen is the maintained Pure Ongole Breed in Indonesia.
ISSN:1755-1307
1755-1315
DOI:10.1088/1755-1315/762/1/012047