A pan-genome–based sequencing framework for genotype imputation and breeding applications

Pan-genome approaches are increasingly recognized as a solution to the limitations of linear reference genomes in genetically diverse populations. This webinar presents a cost-effective sequencing-based framework for genotype imputation, quantitative trait locus (QTL) mapping, and breeding support, with a focus on applications in agricultural genomics. The approach integrates pan-genome graph representations with targeted sequencing strategies to improve variant discovery and imputation accuracy across heterogeneous populations. Compared with traditional SNP arrays, sequencing-based enrichment panels offer greater flexibility, enabling dynamic inclusion of newly discovered variants and improved resolution of rare and structural variation. Scalable library preparation workflows supporting high-throughput genotyping are also discussed, highlighting their relevance for large population studies. To explore the methodology and applications in more detail, view the recorded webinar presented by Josh Clevenger, Ph.D.  from HudsonAlpha Institute for Biotechnology.