Indian Society of Genetics & Plant Breeding

Genomic characterization of mithun (Bos frontalis) populations using high density SNP array

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Mithun (Bos frontalis) is a bovine species found in the four
North-Eastern Hilly States of India viz., Nagaland,
Arunachal, Manipur and Mizoram. The 770k
BovineHDBeadChip (Illumina, CA), which is basically a highdensity SNP array was utilized for genomic characterization
of four mithun populations and to study genetic diversity
present in the populations. SNP genotyping of a total 24
samples representing four mithun populations as per their
geographic locations were carried out. The results indicated
that the majority of polymorphic SNPs were found to be in
HWE. Observed heterozygosity ranged between 0.263±0.040
(Nagaland) to 0.299±0.044 (Arunachal). Inbreeding
coefficient ranged from 0.087±0.139 for Nagaland to
0.186±0.053 for Manipur mithun. The result of the Principal
Component Analysis (PCA) indicated all the mithuns were
distributed together in close proximity and no clear
separation of the four populations was observed.The first
and second principal components (PC1 and PC2) explained
9.59% and 88.0% of the total variation, respectively. The
results of the STRUCTURE analysis also showed no
population substructure as inferred from an increasing plot
of cross validation error, similar to PCA. In our knowledge,
this is the first study on genomic characterization of any
Indian livestock species, through analysis of population
structure and genetic diversity using high density SNP array.
The baseline information generated in our study will help
in developing proper strategies for implementing genomic
selection and conservation of mithun.
 

Keywords: Mithun population, genomic characterization, SNP array, genetic diversity

Info

Year: 2019
Volume: 79
Issue: 1, Supplement
 Article DOI: 10.31742/IJGPB.79S.1.22
Print ISSN: 0019-5200
Online ISSN: 0975-6906

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