The pattern of linkage disequilibrium in Dual-Purpose Belgian Blue cattle

[en] Quantifying the level of linkage disequilibrium (LD), non-random association of alleles at two or more loci, is important to determine the number of markers needed for genomic selection. The aims of this study were to evaluate the extent of LD in Dual-Purpose Belgian Blue (DPBB) and to compare the level of LD in DPBB with that of Walloon Holstein. Data of 28,427 single nucleotide polymorphisms (SNP), located on 29 Bos taurus autosomes (BTA), of 639 DPBB and 398 Holstein bulls were used. The level of LD between pairwise SNPs separated by up to 10 Mb was evaluated, separately for each breed, using the squared correlation of the alleles at two loci. The analysis of molecular variance showed that the percentage of variation within populations (85.48%) was higher than between populations (14.52%). However, permutation tests showed a significant genetic differentiation between the two studied populations (p < .01). The average LD found between adjacent SNP pairs in DPBB (0.16 (SD = 0.22)) was generally lower than in Holstein (0.23 (SD = 0.27)). The proportion of SNPs in useful LD (r2 > 0.30) within a genomic distance of ≤0.10 Mb between SNPs was 18.58% and 28.23% in DPBB and Holstein bulls, respectively. In both breeds, the effective population size decreased over generations; however, the decline was greater in DPBB than that in Holstein. Based on results, it can be concluded that at least 68,000 SNPs are needed for implementing genomic selection in DPBB cattle with enough accuracy.

Disciplines :

Animal production & animal husbandry

Author, co-author :

Atashi, Hadi ; Université de Liège - ULiège > Département GxABT > Ingénierie des productions animales et nutrition

Wilmot, Hélène ; Université de Liège - ULiège > Département GxABT > Ingénierie des productions animales et nutrition

Gengler, Nicolas ; Université de Liège - ULiège > Département GxABT > Ingénierie des productions animales et nutrition

Language :

English

Title :

The pattern of linkage disequilibrium in Dual-Purpose Belgian Blue cattle

Publication date :

2022

Journal title :

Journal of Animal Breeding and Genetics

ISSN :

0931-2668

eISSN :

1439-0388

Publisher :

Wiley, Oxford, United Kingdom

Peer reviewed :

Peer Reviewed verified by ORBi

Available on ORBi :

since 09 December 2021

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