ArticleMolecular ecology resources2026
Imputation in the Wild: Genome-Wide Robustness and Fine-Scale Limitations of Low-Coverage Genomes in Endangered Species.
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
Low-coverage whole-genome sequencing (lcWGS) combined with genotype imputation is increasingly being used to generate large genomic datasets at reduced cost, offering a promising alternative for conservation genomics. Here, we use the Iberian lynx (Lynx pardinus), a species with extremely low genetic diversity, genetically differentiated populations, and recent admixture, as a case study to evaluate the performance of imputed lcWGS data for population genomic inferences. We performed a leave-one-out imputation approach with 50 individuals sequenced to high coverage to assess imputation accuracy under different reference panel compositions, sequencing depths, and imputation strategies. We then compared inbreeding, admixture, and demographic history inferences derived from high-coverage and imputed datasets under highly concordant imputation scenarios (r
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