Novel Single Nucleotide Polymorphisms (SNPs) in Intron 2 and Exon 3 Regions of Leptin Gene in Sumba Ongole Cattle

The bovine leptin (LEP) gene was widely used as a candidate gene for molecular selection to improve productivity traits of cattle. This study was carried out to identify single nucleotide polymorphisms (SNPs) in the LEP gene of Sumba Ongole (SO, Bos indicus) cows using sequencing method. A total of 31 animals were used in this study for analyses. Research showed that total of 16 SNPs were detected in the LEP gene. Along 2025 bp of LEP gene sequence was analyzed in this study and consisted of intron 2 (1002 bp) and exon 3 (1023 bp). The polymorphic informative content (PIC) value was reached from 0.06 (low) to 0.37 (moderate). Total of 16 SNPs in LEP gene of SO cattle had moderate PIC value (0.25<PIC<0.50) and consisted of twelve SNPs in intron 2 and four SNPs in exon 3. The SNPs with moderate PIC value were detected in intron 2 (g.2325G/T; g.2423A/C; g.2448C/T; g.2456C/G; g.2466C/T; g.2778T/A; g.2857G/A) and exon 3 (g.3260T/C; g.3272T/C; g.3356C/T; g.3468G/A). The SNP of g.3468G/A as the novel SNP in LEP gene of SO cattle that not reported in other breeds of cattle. This SNP was changed the amino acid from glycine (GGG) to arginine (AGG). Two type of mutation were detected in the LEP gene of SO cattle and consisted of transversions (44%) and transitions (56%). It was concluded that the LEP gene in SO cattle was showed polymorphisme and potential for molecular selection in the breeding program through depth research.