G3 (Bethesda). 2025 Sep 15:jkaf212. doi: 10.1093/g3journal/jkaf212. Online ahead of print.
ABSTRACT
F1 populations are widely used in genetic mapping studies in agriculture, where known pedigrees enable rigorous quality control measures such as segregation distortion testing. However, conventional tests for segregation distortion are inadequate for polyploids, as they fail to account for double reduction, preferential pairing, and genotype uncertainty, leading to inflated type I error rates. Prior work developed a statistical framework to address these issues in tetraploids. Here, we extend these methods to higher even ploidy levels and introduce additional strategies to mitigate the influence of outliers. Through extensive simulations, we demonstrate that our tests maintain appropriate type I error control while retaining power to detect true segregation distortion. We further validate our approach using empirical data from a hexaploid mapping population. Our methods are implemented in the segtest R package, available on the the Comprehensive R Archive Network (https://doi.org/10.32614/CRAN.package.segtest).
PMID:40971889 | DOI:10.1093/g3journal/jkaf212
