The goal of this project was to identify and characterize polymorphic markers
spanning regions of the bovine major histocompatibility complex (BoLA) to analyze
patterns of genetic variation and haplotype structure across diverse cattle breeds with
various breed histories and selection pressures. Genetic markers that demonstrated
sufficient levels of polymorphism, locus specificity, Mendelian inheritance, and the
accurate typing of alleles across diverse haplotypes were chosen to define separate
haplotype structures for the BoLA IIb and BoLA IIa-III-I regions and to evaluate
breakpoints in linkage disequilibrium within the regions surrounding BoLA IIa-III-I. A
total of 23 microsatellites, two SNPSTRs, 62 SNPs, and the alleles of three class IIa
genes were selected for use in this study. These markers revealed eleven recombination
events, low levels of recombination in BoLA IIa-III-I, a sharp break in haplotype
structure in the region centromeric to class IIa, prolonged linkage disequilibrium in the
extended class I region, strong conservation of BoLA IIa-III-I haplotype structure, BoLA
IIa-III-I homozygous haplotype identity across seven different breeds of cattle, and a
small number of common BoLA IIa-III-I haplotypes within the Angus and Holstein
breeds. This work demonstrated that 52 SNPs from the Illumina 50K SNPchip could
accurately predict BoLA IIa-III-I haplotypes. These 52 SNPs represent tagSNPs that can
predict BoLA IIa-III-I genetic variation and could offer a cost-effective means for
screening large sample sizes for haplotype/disease association studies in the future.
| Identifer | oai:union.ndltd.org:tamu.edu/oai:repository.tamu.edu:1969.1/ETD-TAMU-2009-12-7304 |
| Date | 2009 December 1900 |
| Creators | Fritz, Krista L. |
| Contributors | Skow, Loren C. |
| Source Sets | Texas A and M University |
| Language | en_US |
| Detected Language | English |
| Type | Book, Thesis, Electronic Dissertation, text |
| Format | application/pdf |
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