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Individual admixture levels in these regions versus admixture levels of the background genome of composite Baoule x Zebu animals were compared. Materials and methods Study design and animals Blood was taken from 214 animals in total out of which 90 were Baoule from South West (SW) Burkina Faso, 90 were Zebu from the North (n = 54) and SW (n = 36) regions and 34 were Baoule-Zebu composites from SW. The North selleckchem of Burkina Faso is part of the Sahelian region with no threat of trypanosomosis, while SW is a Sudanese region that is heavily tse-tse infested. Designation of animals to breed was based on information by owners of the animals. Animals were from 23 different locations in Burkina Faso. FTA cards were used for collection and storage of blood for all animals. Laccase Discovery of regions for selective SNP genotyping Only a small number of SNPs could be selectively genotyped in this project. For the choice of these SNPs, the selection signature approach and sampling of animals by Stella et al. (2010) was employed. Data were from the International Bovine HapMap study (Bovine HapMap Consortium, 2009), including the trypanotolerant African taurine breeds N'Dama and Sheko. Baoule is very closely related to N'Dama (Decker et al., 2014). The 32,689 HapMap SNPs as well as 54,001 Illumina 50k bovine BeadChip SNPs were available for analysis, extending the study of Stella et al. (2010). These two sources of data were merged and after quality control, applying a minor allele frequency threshold of 0.05, a minimum call rate of 0.95 per SNP and removal of duplicate SNP, the final data set comprised 71,235 SNP. To identify putative selection signatures, allelic frequencies of the N'Dama (N = 22) and Sheko (N = 19), either pooled or separate, were compared to the allelic frequencies of the entire population (N = 497) in the study and nominal P-values were calculated for the differences in frequencies at each SNP. The nomimal P-values were then used to calculate composite log-likelihoods (CLL) for sliding windows of 9 SNP across the genome. To determine statistical significance, permutation testing was employed this website by comparing the CLL to the distribution of 50,000 permutations of CLL obtained with random samples of animals (i.e., across all HapMap breeds). The signals typically pointed to narrow regions (0.2�C0.4 Mb), with an average of 254,841 bp. A total of 158 SNPs from 23 regions with strong signals (genome-wide P