Detection of Genetic Diversity in Four Candidate Genes by Polymerase Chain Reaction-Single Strand Conformation Polymorphism (PCR-SSCP) Analysis of Goats in Sri Lanka

Abstract

Genetic diversity of Sri Lankan goats (Capra hircus) was evaluated using Polymerase Chain Reaction-Single Strand Conformation Polymorphism (PCR-SSCP) method to detect polymophism in four candidate genes (LALBA, k-CSN3, GnRHR and BMP4) in a sample of 219 goats representing three phenotypic groups. All studied loci were polymorphic, having three morphs for BMP4, LALBA and two morphs for k-CSN3 and GnRHR in the study population. A significant difference between genotypic frequencies for BMP4 and GnRHR genes was found while PIC criterion revealed an intermediate polymorphism for all analyzed phenotypic groups except for k-CSN3 and GnRHR genes. Cross-bred animals for BMP4 gene and nondescript animals for LALBA gene were comparatively more polymorphic according to the effective allele number criterion. This study provides insight into the genetic diversity of Sri Lankan goats, which can be utilized to develop single nucleotide polymorphism markers to be used in association studies, and marker assisted selection.

Evaluation of Bone Morphogenetic Protein-4 gene polymorphism for growth traits in Indian goat breeds

“…The current findings of PCR-SSCP polymorphism in BMP4 gene are in agreement with previous finding in Xuhuai White goat, Boer goat and Haimen goats (Fang et al 2010), nine different Indian breeds of goat (Sharma et al 2013), Jinning Grey goats (Chu et al 2011) and in Srilankan non-descript, crossbreds and Jamunapari goats (Ariyarathne et al 2016). However, Sarma et al (2019) reported a monomorphic pattern in Assam hill goats.…”

“…PCR amplification of targeted gene fragment of BMP-4 gene: A set of the following published primers (i.e. Forward: 5'-CTGGGGAAATGTTTGGTA-3'and Reverse: 5'-GCTAAGAGTTGGGTGATGAG-3') were used to amplify the intron-2 region of the BMP-4 gene with 380 bp size (Ariyarathne et al 2016). The PCR reaction mixture of a total 25 μl consisted of 1 μl of each primer (1.0 μM), 12.5 μl PCR master mix, 3 μl of genomic DNA and 7.5 μl of nuclease free water.…”