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bioRxiv · 10.1101/2025.01.14.631659

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.
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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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Godec, T., Beier, S., Rodriguez-Granados, N. Y., Sasidharan, R., Abdelhakim, L., Teige, M., Usadel, B., Gruden, K., Petek, M.. 2025-01-14. Haplotype-resolved genome assembly of the tetraploid potato cultivar Desiree. https://doi.org/10.1101/2025.01.14.631659

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