BoLA‐DRB3 genetic diversity in Highland Creole cattle from Bolivia

Abstract

The genetic diversity of the BoLA-DRB3 gene has been reported in different cattle breeds owing to its central role in the immune response. However, it is still unknown in hundreds of cattle breeds, especially native populations. Here, we studied BoLA-DRB3 genetic diversity in Highland Creole cattle (CrAl) from Western Bolivia, raised at altitudes between 3800 and 4200 m. DNAs from 48 CrAl cattle were genotyped for BoLA-DRB3 exon 2 alleles using polymerase chain reaction-sequence-based typing (PCR-SBT). The results were compared with 1341 previously reported data from Tropical Creole cattle and other breeds raised in the region. Twenty-three BoLA-DRB3 alleles were identified in CrAl, including the BoLA-DRB3*029:02 variant previously detected in other Creole cattle. Observed and expected heterozygosity were 0.87 and 0.93, respectively. Nucleotide diversity and the number of pairwise difference values were 0.078 and 19.46, respectively. The average number of nonsynonymous and synonymous substitutions were 0.037 and 0.097 for the entire BoLA-DRB3 exon 2, and 0.129 and 0.388 for the antigen-binding site, respectively. Venn analysis and the review of the IPD-MHC database and the literature showed that 2 of 64 alleles were only detected in CrAl, including BoLA-DRB3*029:01 previously reported in African cattle and *048:01 detected in Philippine cattle. Two additional alleles, BoLA-DRB3*007:02 and *029:02, were only present in CrAl and Lowland Creole cattle. Principal Component Analysis (PCA) showed that Bolivian Creole cattle breeds were closely located but they were distant from the Colombian Hartón del Valle Creole. F ST analysis showed a low degree of genetic differentiation between Highland and Lowland Bolivian Creole cattle (F ST = 0.015). The present results contribute to increasing our knowledge of BoLA-DRB3 genetic diversity in cattle breeds.

BoLA-DRB3 gene haplotypes show divergence in native Sudanese cattle from taurine and indicine breeds

“…Significant differences were observed in nine out of the ten native population comparisons ( p < 0.05; Table S3 ). Similar genetic distance values were observed among Holstein populations from different countries and between native breeds of Myanmar 18 , 37 .…”

“…This low but significant value can be explained by high within-population diversity and differences in rare alleles profiles among them 36 . The average F ST value observed in Sudanese cattle is higher than those estimated in Myanmar native breeds ( F ST = 0.003), and slightly lower than those reported for Holstein populations from different countries ( F ST = 0.009) 18 , 37 (Fig. 5 and Table S2 ).…”

“…Two BoLA-DRB3 alleles, that were only previously reported in Creole cattle breeds 21 , 37 , were identified in native Sudanese breeds. Studies based on mitochondrial DNA and Y chromosome haplotypes have revealed an African component in the germplasm of the American creole bovine breeds.…”

High throughput analysis of MHC‐I and MHC‐DR diversity of Brazilian cattle populations

“…In conclusion, we present here a new HTS system to study in parallel MHCI and DRB3 repertoires in cattle. The high number of recent publications focusing on analysis of DRB3 repertoires demonstrates the potential utility of this tool in a number of areas of research 40,42–47 . In this study, application of this system has generated novel data on the association between MHCI haplotypes and DRB3 alleles as well as generated a substantial new dataset of MHCI allele sequences and haplotype content for three major Bos indicus cattle breeds of Brazil.…”

A pooled testing system to rapidly identify cattle carrying the elite controller BoLA‐DRB3*009:02 haplotype against bovine leukemia virus infection

“…24 Cattle carrying DRB3*009:02 have been seen in Japan and across the world. [43][44][45][46][47][48][49][50] On the other hands, not all cattle carrying DRB3*009:02 can be BLV ECs. Previous reports showed that minor population of cattle carrying this allele had detectable BLV provirus and progressed lymphoma.…”