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Identification of SNPs of CAST gene in three different cattle breeds of Pakistan

By: Sadaf Jumani, Javed Ahmed Ujan, Majida Parveen, Sapna Waheed Memon, Om Parkash, Sham Lal, Shahnawaz Ujjan

Key Words: Cattle, DNA sequencing, PCR, Gel electrophoresis, SNPs.

Int. J. Biosci. 16(1), 227-232, January 2020.

DOI: http://dx.doi.org/10.12692/ijb/16.1.227-232

Certification: ijb 2020 0024 [Generate Certificate]

Abstract

Calpastatin is the variable component of calpain system, encoded by CAST gene. In skeletal muscle growth and post mortem tenderness of meat there is an essential role of calpastatin. Cast gene is located on bovine chromosome 7. Its main purpose is to change the proteolytic action of enzymes reliable for post-mortem myofibril deterioration. Present study was aimed at identification of novel SNPs of Calpastatin gene in three different cattle breeds of Pakistan. In this study PCR-Gel Electrophoresis and DNA sequencing techniques were used for obtaining the results. In total 7 mutations were identified with the help of PCR-Gel Electrophoresis and DNA Sequencing technique. Based on Genetic code, we have identified (02) mutations in Exon-5 of Red Sindhi cattle breed including a silent mutation at  80 bp in which CAA(Glutamine) codon was changed to CAG(Glutamine) but does not causes any change of Amino acid hence will not effect on meat qualities of the Red Sindhi cattle, Another mutation was also found in Exon 5 of the Red Sindhi cattle breed, which causes change of codon from TGT to CGT, in which former was coding for the  Cystine and later is coding for Arginine Amino acid change from non-essential to essential. In Sahiwali cattle, 02 mutations were also identified in exon 3, in which AAA codon was changed to ACA at 27 bp, which results in substitution of Lysine to Threonine amino acid. Second mutation caused the change of codon from ATC to AGC which results in change of amino acid from Isoleucine to serine amino acid. We have also identified 03 mutations in Exon5 of Tharparker cattle breed. First one was identified at 35 bp of Exon 5, in which GTA codon was changed to GTG, which does not cause any change of amino acid so called silent mutation (Valine to Valine). Second mutation was identified at 57 bp in which GAA codon was changed into AAA, which results in change of Glutamine amino acid to Lysine Amino acid. Third mutation resulted in change of TAT codon to TGT codon that caused change of Thyronine amino acid to Cysteine amino acid. Based on this study we suggest that Exon 5. Essential mutation can be effect the meat properties in position manner and hence can be used in Marker Assisted selection of this cattle breed.

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Identification of SNPs of CAST gene in three different cattle breeds of Pakistan

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Sadaf Jumani, Javed Ahmed Ujan, Majida Parveen, Sapna Waheed Memon, Om Parkash, Sham Lal, Shahnawaz Ujjan.
Identification of SNPs of CAST gene in three different cattle breeds of Pakistan.
Int. J. Biosci. 16(1), 227-232, January 2020.
https://innspub.net/ijb/identification-snps-cast-gene-three-different-cattle-breeds-pakistan/
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