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United States Department of Agriculture

Agricultural Research Service

Research Project: ENHANCING GENETIC MERIT OF DAIRY CATTLE THROUGH GENOME SELECTION AND ANALYSIS Title: Initial analysis of copy number variations in cattle selected for resistance or susceptibility to intestinal nematodes

Authors
item Liu, Ge
item Brown, Twain
item Hebert, Deborah
item Cardone, Maria -
item Hou, Yali -
item Choudhary, Ratan -
item Shaffer, Jessica
item Amazu, Chinwendu -
item Connor, Erin
item Ventura, Mario -
item Gasbarre, Louis

Submitted to: Plant and Animal Genome Conference Proceedings
Publication Type: Abstract Only
Publication Acceptance Date: December 1, 2011
Publication Date: January 15, 2011
Citation: Liu, G., Brown, T.E., Hebert, D.A., Cardone, M.F., Hou, Y., Choudhary, R.K., Shaffer, J.F., Amazu, C., Connor, E.E., Ventura, M., Gasbarre, L.C. 2011. Initial analysis of copy number variations in cattle selected for resistance or susceptibility to intestinal nematodes. Plant and Animal Genome Conference Proceedings. Plant and Animal Genome Conference XIX Proceedings. P542.

Technical Abstract: Genomic structural variation is an important and abundant source of genetic and phenotypic variation. We report an initial analysis of copy number variations (CNVs) in cattle selected for resistance or susceptibility to intestinal nematodes. We performed 3 array comparative genomic hybridization (CGH) experiments to compare Angus cattle with extreme phenotypes for fecal egg count and serum pepsinogen level. We identified 20 CNVs in total, of which 12 were within known chromosomes harboring or adjacent to gains or losses. About 85% of the CNV identified (17/20) overlapped with cattle CNV regions that were reported recently. Selected CNVs were further validated by independent methods using quantitative PCR (qPCR) and FISH. Pathway analyses indicated that annotated cattle genes within these variable regions are particularly enriched for immune function affecting receptor activities, signal transduction, and transcription. Analysis of TFBS within the promoter regions of differentially-expressed genes suggested that common transcription factors are probably involved in parasite resistance. These results provide valuable hypotheses for the future study of cattle CNVs underling economically-important health and production traits.

Last Modified: 8/30/2014