Functional diversity of Toll signaling pathway in Czech Simmental cattle with respect to health and resilience traits
Abstract
The work was aimed at the screening for and interpretation of functional polymorphism in the key members of the Toll signaling pathway in the population of the Czech Simmental cattle. Focus was on the transcription factor NFkappaB as the main pleiotropic factor for phenotypic traits and to MyD88 as an interactor insufficiently studied until now.
Hybrid resequencing with Illumina X-Ten WGS and Pac-Bio amplicon sequencing yielded 22 and 13 SNPs in NFkappaB1 and NFkappaB2 genes, respectively, while over 30 SNPs were found in the MYD88 gene. The PacBio amplicons were used for haplotype determination in the given population, resulting in 7 haplotypes for NFkappaB1, 6 haplotypes for NFkappaB2 and additional tens of SNPs in MYD88.
Based on the functional prediction and haplotype assignment, a subset of candidate SNPs of interest was chosen for subsequent genotyping with the SNaPshot technique. The working sets of reactions included 8 and 11 SNPs in NFkappaB1 and -2 genes, respectively, and 18 SNPs in MYD88.
The presence of a nonsynonymous mutation R474G in NFkappaB1 allows to assume phenotypic effects due to the pronounced pleiotropy of this gene. The results from genotyping of individual animals were used for haplotype reconstruction in the given population and for the association study in the set of 164 bulls using haplotype data.
The breeding values for milk production, health traits and female fertility were correlated with allelic forms of the 2 key genes along with the TLR gene series. The ongoing work includes the resilience trait of milk production as the indicator potentially affected by the Toll pathway members.