Inference of Ancestries and Heterozygosity Proportion and Genotype Imputation in West African Cattle Populations.

ABSTRACT: Several studies have evaluated computational methods that infer the haplotypes from population genotype data in European cattle populations. However, little is known about how well they perform in African indigenous and crossbred populations. This study investigates: (1) global and local ancestry inference; (2) heterozygosity proportion estimation; and (3) genotype imputation in West African indigenous and crossbred cattle populations. Principal component analysis (PCA), ADMIXTURE, and LAMP-LD were used to analyse a medium-density single nucleotide polymorphism (SNP) dataset from Senegalese crossbred cattle. Reference SNP data of East and West African indigenous and crossbred cattle populations were used to investigate the accuracy of imputation from low to medium-density and from medium t

SUBMITTER: Gebrehiwot NZ 

PROVIDER: S-EPMC8025404 | biostudies-literature | 2021

REPOSITORIES: biostudies-literature