Detection of Haplotypic Structure for Genome of Azerbaijani Buffalo Using High Density SNP Markers

The aim of this study was to determine genome-wide haplotype block structure, extent of linkage disequilibrium (LD) and effective population size using the information obtained from 243 Azerbaijani buffalo (Axiom® Buffalo Genotyping 90 K) using a high density SNP panel. After quality control, 62,141 SNP markers remained for population structure analysis and identification of haplotype blocks. The extent of LD was measured by the square of correlation coefficient (r2) between alleles. The maximum LD varied from 0.25 to 0.29 at a distance of