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Title: An across-breed genome wide association analysis of susceptibility to paratuberculosis in dairy cattle
Authors: Sallam, Ahmed M.
Zare, Yalda
Shook, George E.
Collins, Michael T.
Alsheikh, Samir
Sharaby, Mahmoud
Kirkpatrick, Brian W.
Uludağ Üniversitesi/Veteriner Fakültesi/Hayvan Bilimleri Anabilim Dalı.
Alpay, Fazlı
Keywords: Agriculture
Food science & technology
Johne's disease
Avium subspecies paratuberculosis
Bovine paratuberculosis
Issue Date: 14-Dec-2016
Publisher: Cambridge Üniversitesi
Citation: Sallam, A. M. vd. (2017). ''An across-breed genome wide association analysis of susceptibility to paratuberculosis in dairy cattle''. Journal of Dairy Research, 84(1), 61-67.
Abstract: Paratuberculosis is a chronic disease of ruminants caused by Mycobacterium avium subspecies paratuberculosis (MAP). It occurs worldwide and causes a significant loss in the animal production industry. There is no cure for MAP infection and vaccination is problematic. Identification of genetics of susceptibility could be a useful adjunct for programs that focus on management, testing and culling of diseased animals. A case-control, genome-wide association study (GWAS) was conducted using Holstein and Jersey cattle in a combined analysis in order to identify markers and chromosomal regions associated with susceptibility to MAP infection across-breed. A mixed-model method (GRAMMAR-GC) implemented in the GenABEL R package and a Bayes C analysis implemented in GenSel software were used as alternative approaches to conduct GWAS analysis focused on single SNPs and chromosomal segments, respectively. After conducting quality control, 22 406 SNPs from 2157 individuals were available for the GRAMMAR-GC (Bayes C) analysis and 45 640 SNPs from 2199 individuals were available for the Bayes C analysis. One SNP located on BTA27 (8.6 Mb) was identified as moderately associated (P < 5 x10(-5), FDR = 0.44) in the GRAMMAR-GC analysis of the combined breed data. Nine 1 Mb windows located on BTA 2, 3 (3 windows), 6, 8, 25, 27 and 29 each explained >= 1% of the total proportion of genetic variance in the Bayes Canalysis. In an analysis ignoring differences in linkage phase, two moderately significantly associated SNPs were identified; ARS-BFGL-NGS-19381 on BTA23 (32 Mb) and Hapmap40994-BTA46361 on BTA19 (61 Mb). New common genomic regions and candidate genes have been identified from the across-breed analysis that might be involved in the immune response and susceptibility to MAP infection.
ISSN: 0022-0299
Appears in Collections:Scopus
Web of Science

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