Examination of the Number of Loci Necessary for Inbreeding Evaluation with DNA Markers

Abstract

Effects of number and polymorphic content of DNA markers on marker homozygosity were examined by bootstrap simulation using genotype dataset of a simple F₂ family. The deviation of marker homozygosity in this population is unchanged as increased number of the replication. The increased sampling number of the markers was made more small deviation of marker homozygosity of individuals. When 70 markers were sampled from markers with 2 alleles, the coefficient of correlation with marker homozygosity calculated from all markers was over 0.7. In contrast, it is 40 markers in sampling from markers with more than 3 alleles over same criteria. Similarly, for full-informative markers we were able to evaluate certain marker homozygosity when the number of markers was greater than 20. From these results, it was shown that 70 markers with 2 alleles and/or 20 markers with highly polymorphism are required for evaluating marker homozygosity of the individual level.