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United States Department of Agriculture

Agricultural Research Service

Title: Whole Genome Association Study of Johne's Disease

item Settles, M
item Zanella, R
item Mckay, S
item Schnabel, R
item Taylor, J
item Fyock, T
item Whitlock, R
item Schukken, Y
item Hovingh, E
item Van Kessel, Jo Ann
item Karns, Jeffrey
item Smith, J
item Neibergs, H

Submitted to: International Symposium on Animal Genomics for Animal Health
Publication Type: Abstract Only
Publication Acceptance Date: 3/15/2008
Publication Date: 4/8/2008
Citation: Settles, M., Zanella, R., Mckay, S., Schnabel, R., Taylor, J., Fyock, T., Whitlock, R., Schukken, Y., Hovingh, E., Van Kessel, J.S., Karns, J.S., Smith, J., Neibergs, H. 2008. Whole Genome Association Study of Johne's Disease. 3rd International Symposium on Animal Functional Genomics (ISAFG), April 7th-9th, 2008, Edinburg, UK.

Interpretive Summary:

Technical Abstract: Bovine Paratuberculosis, commonly referred to as Johne's disease, is a contagious bacterial disease estimated to be present in over 65% of US dairy herds and results in annual losses in the hundreds of millions of US dollars. Mycobacterium avium subspecies paratuberculosis (MAP) is the bacteria responsible for Johne's disease. The purpose of this study was to identify novel bovine loci associated with Johne's disease. Cases were defined as Holsteins with tissue samples positive for MAP, whereas control samples were tissue negative for MAP. Genotyping was conducted on 111 cases and 102 control cows from four US dairy herds with the Illumina BovineSNP50 BeadChip, which contains 53,279 single-nucleotide-polymorphisms (SNPs). Nine animals were removed from the analysis because of a no call rate of more than 10%, leaving 97 control and 107 cases. Eighty-eight percent of SNPs (46,966) were polymorphic and had a call rate of greater than 80%. Whole genome association analysis was conducted using the R statistical environment and the R package SNPassoc. The study identified multiple SNPs associated with Johne's disease after stringent multiple testing correction (adjusted p-value < 0.05). The SNPs identified as being associated with Johne's disease included previously unreported regions near the centromere of chromosome 1 and the pseudoautosomal region of the X chromosome. To our knowledge, this is the first whole genome association study of Johne's disease in cattle and the first use of the recently released BovineSNP50 BeadChip for disease association.

Last Modified: 07/25/2017
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