26. Performance of bovine high density SNPs genotyping array in indigenous Pakistani cattle breeds

Main Article Content

Hamid Mustafa Waqas Ahmad Khan Huson J. Heather Zulfiqar Hussain Kuthu Kim EuiSoo EuiSoo Adeela Ajmal Noor Ul Ain Tad S. Sonstegard

Abstract

The bovine high density SNPs genotyping array has a wide range of applications including detection of selection signatures, identification of copy number variants (CNVs), genome wide association studies, and dendrogram relationships. This array can also be used to improve the accuracy of genomic predictions for low heritable traits viz. reproductive traits. The effectiveness of this array for genomic selection mainly depends on polymorphism level. In this study, we used 136 individuals from ten different Pakistani cattle breeds, include Achi (18), Bhagnari (14), Cholistani (13), Dajal (10), Dhanni (10), Kankraj (12), Lohani (19), Red Sindhi (13), Sahiwal (14), and Tharparkar (13) using high density SNPs genotyping and this array contained approximately 777, 962 SNPs. The results of this study revealed that approximately 500, 939 SNPs were found polymorphic in these breeds. The results indicate that high density SNPs bead chip would offer an informative genotyping platform for quantitative trait loci (QTL) mapping in indigenous Pakistani cattle breeds.


Keywords: Copy number variants; Genotyping; Polymorphism; Quantitative trait loci; SNPs


http://dx.doi.org/10.19045/bspab.2018.70026

Most read articles by the same author(s)

Obs.: This plugin requires at least one statistics/report plugin to be enabled. If your statistics plugins provide more than one metric then please also select a main metric on the admin's site settings page and/or on the journal manager's settings pages.