ArticleMolecular ecology resources2026
MixedUpParents: A New and Improved Method for Genetic Parentage Assignment in Admixed Populations.
Article in Molecular ecology resources, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Hybridization is ubiquitous throughout the tree of life. Its presence in genetic datasets often violates model assumptions or leads to erroneous inferences. Nonetheless, few parentage assignment methods have been developed that account for hybridization or admixture, particularly in non-model systems. Here, we describe a novel method of parentage analysis, MixedUpParents, that accounts for hybridization by using species-diagnostic single nucleotide polymorphisms while accounting for mixed ancestry within discrete genomic segments. We test MixedUpParents alongside other parentage assignment programs through simulations to assess assignment accuracy in scenarios with and without hybridization. Our simulations included a range of parameter values, including missing genotypes, migration (hybridization) rates and proportions of un-sampled individuals. Simulation results showed that in all scenarios with admixture, MixedUpParents outperformed the other parentage methods tested and performed well for parent-offspring assignment even when only one parent is sampled. In the best cases, MixedUpParents achieved
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