Detection of genetic markers in the zoometrical index of Indonesian local cattle with Bovine 50K SNP BeadChip

Abstract

Abstract Zoometrical index can be used to evaluate the performance of cattle. The present study aimed to detect the genetic markers for zoometrical index of cattle. Forty-five heads of mixed-sex cattle consisting of Bali (16), Madura (16), and Peranakan Ongole / PO (13) were collected from the breeding station for the experimental animals in this study. A Bovine 50K SNP BeadChip was used to explore genetic mutation in the autosomal chromosomes. Nine parameters of zoometrical index were evaluated in the present study. A TASSEL 5.0 software was used to evaluate 24,347 SNP markers. Research showed that two SNP Markers of ARS-BFGL-NGS-115374 (SNP1) and Hapmap28985-BTA-73836 (SNP2) had a significant association with zoometrical index in pool animals based on the Manhattan plot. The SNP1 had a significant association with the area index. Subsequently, a SNP2 significantly correlated with body ratio and over-increase index parameters. In addition, SNP1 is not located in the gene region. Meanwhile, SNP2 is located at the intron 5 region of the Cryptochromes circadian regulator 1 (CRY1) gene. However, this gene was polymorphic in Bos indicus cattle (Madura and PO). In conclusion, the CRY1 gene can improve the zoometrical index in Indonesian Bos indicus cattle (Madura and PO)