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Genome Wide Association Analysis of Lung Lesions in Cattle using Sample Pooling

Monday, August 18, 2014: 1:45 PM
Bayshore Grand Ballroom E-F (The Westin Bayshore)
John W. Keele , USDA, ARS, U.S. Meat Animal Research Center, Clay Center, NE
Larry A. Kuehn , USDA, ARS, U.S. Meat Animal Research Center, Clay Center, NE
Tara G. McDaneld , USDA, ARS, U.S. Meat Animal Research Center, Clay Center, NE
Shuna A Jones , USDA, ARS, U.S. Meat Animal Research Center, Clay Center, NE
Timothy P. L. Smith , USDA, ARS, U.S. Meat Animal Research Center, Clay Center, NE
Steven D. Shackelford , USDA, ARS, U.S. Meat Animal Research Center, Clay Center, NE
D. Andy King , USDA, ARS, U.S. Meat Animal Research Center, Clay Center, NE
Tommy L. Wheeler , USDA, ARS, U.S. Meat Animal Research Center, Clay Center, NE
Recorded Presentation (flv)
Abstract Text: Lung samples were collected from 11,520 young cattle from a  beef processing plant.  Lung samples with lesions (cases) and healthy lungs (controls) were collected when both phenotypes were in close proximity on the viscera table.  Lung samples for 96 animals with the same phenotype (case or control) were placed in a pool; 60 pools each for case and control, and the Bovine HD array was run on all pools.  Seven SNP on BTA 3, 7, 9, 11, 14 and 15 were significant at the genome wide experiment wise error rate of 5 % (P ≤ 1.49 × 10-7).  Eighty-four SNP on 28 chromosomes  achieved a false discovery rate of 5 % (P ≤ 5.47 × 10-6).  Significant SNP were near (+/- 100 Kb) genes involved in tissue repair and regeneration, tumor suppression, control of organ size, and immunity. 

Keywords:

BRDC

lung lesions

GWAS

See more of: Alternative Methods for Analysis of Disease Phenotypes
See more of: Genetics of Trait Complexes: Disease resistance
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