Haplotype and phylogenetic analysis of OLR1Intron I gene in Jaffarabadi and Surti buffalo

Nadeem Shabir,Mehrajuddin Naikoo,D Rank,C Joshi,C Jawale,C Bhong

doi:10.5455/vetworld.2011.396-398

Abstract

The present study was carried out to reveal haplotype and phylogenetic analysis of OLR1 gene in Jaffarabadi and Surti breeds of buffalo. Twenty nucleotide sequences generated from our previous study (Shabir, 2009) were used to reveal the haplotypes in OLR1 (Intron I) gene in the population of Jaffarabadi and Surti buffalo. Four haplotypes viz. H1 (CTA), H2 (TCT), H3 (CTT) and H4 (TTT) were observed with frequencies of 0.05, 0.1, 0.15 and 0.7 respectively in the population studied. Phylogenetic analysis of these twenty sequences with the same region of Bos taurus distributed the sequences into four clusters based on the homology between them. Cluster I contained two sequences (jb3 and jb8) bearing a common SNP at nucleotide position 843. Cluster III contained s3, s4 and s7 since they possessed a common SNP at nucleotide position 423, however s3 remained as an out group in this cluster since it contained an additional SNP at position 866. The remaining sequences had highest homology and fell in cluster II while as the sequence of Bos taurus remained as an out group on account of the difference in bases at many loci.

Highlights

Oxidized Low Density lipoprotein Receptor 1 (OLR1) is the major protein that binds, internalizes, and degrades oxidized low-density lipoprotein
Twenty nucleotide sequences generated from our previous study (Shabir, 2009) were used to reveal the haplotypes in OLR1 (Intron I) gene in the population of Jaffarabadi and Surti buffalo
Based on the aforementioned studies indicating the role of OLR1 in lipid metabolism and its correlation with milk fat percentage, the study of haplotype analysis in this gene in Jaffarabadi and Surti breed of Bubalus bubalis was performed considering the higher milk fat percentages in buffaloes

Summary

Introduction

Oxidized Low Density lipoprotein Receptor 1 (OLR1) is the major protein that binds, internalizes, and degrades oxidized low-density lipoprotein. The present study was carried out to reveal haplotype and phylogenetic analysis of OLR1 gene in Jaffarabadi and Surti breeds of buffalo. Twenty nucleotide sequences generated from our previous study (Shabir, 2009) were used to reveal the haplotypes in OLR1 (Intron I) gene in the population of Jaffarabadi and Surti buffalo.

Results

Conclusion