ARS | Publication request: Use of Multilocus Iterative Allelic Peeling of Marker Genotypes for Quality Control in An Experimental Population Divergently Seected for Resistance to Gastrointestinal Nematodes.

Submitted to: Gordon Research Conference Proceedings
Publication Type: Abstract
Publication Acceptance Date: March 26, 2003
Publication Date: N/A

Technical Abstract: Gastrointestinal nematodes can dramatically affect efficiency of cattle raised on pasture, and therefore, a selection program was initiated to investigate the role of host genetics on disease and parasite transmission. The objective of this study was to test the performance of GenoProb software for QTL analyses on this population. The population consists of over 300 progeny representing five generations of divergent selection for resistance to parasite infection. The parental animals were derived from a linebred Angus population descended from a single bull born in 1944. This historic portion of the pedigree spans another nine generations. DNA was largely unavailable for historic females. The complete pedigree included information for 931 animals, and 425 of those had genotypic data recorded for 190 microsatellite markers. GenoProb provided a solution for this complex pedigree by implementing multilocus iterative allelic peeling and was used to calculate genotype probabilities for each individual represented in the pedigree. GenoProb uses an incomplete penetrance model for marker data and generates probabilities of scoring errors. These probabilities identified animals with likely pedigree errors and problem markers that needed additional analysis to generate correct marker data. Finally, inheritance probabilities calculated were used for a quantitative trait locus analyses.