Next Generation Sequencing (NGS) Based Variation Analysis: A New Practical Biomarker for Beef Tenderness Assessment

Year 2019, Volume: 3 Issue: 4, 233 - 239, 24.12.2019

Esin Çalık , Volkan Baltacı , Prof. Dr. Kezban Candoğan

https://doi.org/10.31015/jaefs.2019.4.6

Abstract

Evaluation of some
meat quality attributes using genetic analysis is steadily increasing. PCR
based targeted variation analysis is one of the most commonly preferred
techniques for this purpose. Recently, Next Generation Sequencing (NGS) method has drawn
considerable attention because of its’ high
analysis capacity. The purpose of the current study was to
determine variations in CAST gene from Brangus and Simmental cattle by performing
whole gene sequencing using NGS, and to investigate the potential of NGS method
in evaluating meat tenderness based on the high genomic data it provides. Whole gene sequence analysis was performed on
Calpastatin (CAST) gene of samples acquired from 52 Brangus and 52 Simmental beef
cattle breeds using NGS method, and the variations detected were evaluated in
terms of their potential in measuring meat tenderness and quality. NGS
outputs were analyzed in Ensemble “cow” database platform and 13 variations were
detected. One of these variations (EXON 8 c.439C>G/ p.L147V ) was evaluated
as undeclared before. In 20 Brangus cattle and in 9 Simmental cattle, no variations
were detected whereas 6 variations (V1, V2, V5, V8, V10 and V13) were found significantly
different (p<0.05) based on their distribution in breeds. 

Keywords

Beef tenderness, Polymorphisms, Calpastatin (CAST) gene

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