Fine-scale genetic structure analysis of Bos taurus and Bos indicus adaptability
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Date
2017
Authors
Krehbiel, B. C., author
Thomas, M. G., author
Hay, E. H., author
Blackburn, H. D., author
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Abstract
Environmental impacts have varying effects on animal agriculture and genetic adaptability is necessary for livestock to continue production in adverse conditions. Genetic diversity within a population enables genetic adaptability for livestock to withstand issues that may be altering production. Previous research revealed that genetic structure exists among Hereford cattle sampled from climate zones within the U.S. The cattle genetic structure was identified in allele frequencies of SNP that were associated with traits responsive to climate. Results revealed partitioning of the breed based on cool, warm, humid, and dry climates. Subsequently, the objective of this research was to use similar methods to identify genetic structure in seven cattle breeds (Hereford, Angus, Salers, Braford, Brahman, Simmental, and Nelore) in relation to SNP within genes associated with high altitude disease. Three-hundred and eight-eight cattle were genotyped using the BovineHD BeadChip (777,962 SNP). Seven genes were identified in literature that had been associated with high altitude disease in humans, poultry, swine, sheep, and cattle. Subsequently, SNP within the seven genes were queried from NCBI dbSNP database. Four hundred and fifty-one SNP located within high altitude genes were located on the BovineHD BeadChip. Twenty-seven SNP were removed due to low call rate on the animals. Genetic structure using the 424 SNP and principle component analysis was performed. The cattle were partitioned based on indicine or taurine descent. Also, breeds were partitioned based on high altitude structure. A separate SNP validation panel was used to determine whether differences observed in breeds was due to breed differences or high altitude structure. One-hundred SNP were randomly selected from the BovineHD BeadChip. Principle component analysis was performed and revealed partitioning between taurine and indicine cattle. However, the cattle genotypes partitioned differently compared to previous principle component analysis on the 424 SNP associated with high altitude disease. Preliminary analysis showed that genetic structure exists among the seven cattle breeds due to high altitude impacts. Therefore, cattle breeders can utilize this information to select cattle tolerant of high altitudes.
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Subject
high altitude disease
single-nucleotide polymorphism (SNP)
genetic diversity