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Haplotype-resolved genome assembly of the tetraploid potato cultivar Desiree

Godec, T.; Beier, S.; Rodriguez-Granados, N. Y.; Sasidharan, R.; Abdelhakim, L.; Teige, M.; Usadel, B.; Gruden, K.; Petek, M.

2025-01-14 plant biology
10.1101/2025.01.14.631659 bioRxiv
Show abstract

Cultivar Desiree is an important model for potato functional genomics studies to assist breeding strategies. Here, we present a haplotype-resolved genome assembly of Desiree, achieved by assembling PacBio HiFi reads and Hi-C scaffolding, resulting in a high-contiguity chromosome-level assembly. We implemented a comprehensive annotation pipeline incorporating gene models and functional annotations from the Solanum tuberosum Phureja DM reference genome alongside RNA-seq reads to provide high-quality gene and transcript annotations. Additionally, we provide a genome-wide DNA methylation profile using Oxford Nanopore reads, enabling insights into potato epigenetics. The assembled genome, annotations, methylation and expression data are visualised in a publicly accessible genome browser (https://desiree.nib.si), providing a valuable resource for the potato research community.

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