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ARS Home » Pacific West Area » Corvallis, Oregon » Forage Seed and Cereal Research Unit » Research » Publications at this Location » Publication #426263
Research Project: Development of Superior Hops and Resilient Hop Production Systems

Location: Forage Seed and Cereal Research Unit

Title: Genomic resources for Fusarium sambucinum, a causal agent of Fusarium canker of hop and dry rot of potato

Author
item BORLAND, THEODORA - Oregon State University
item CAULDRON, NICHOLAS - Brown University
item GRUNWALD, NIKLAUS - US Department Of Agriculture (USDA)
item THOMAS, WILLIAM - Oregon State University
item OCAMB, CYNTHIA - Oregon State University
item Gent, David

Submitted to: PhytoFrontiers
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 8/8/2025
Publication Date: 8/8/2025
Citation: Borland, T.G., Cauldron, N.C., Grunwald, N.J., Thomas, W.J., Ocamb, C.M., Gent, D.H. 2025. Genomic resources for Fusarium sambucinum, a causal agent of Fusarium canker of hop and dry rot of potato. PhytoFrontiers. https://doi.org/10.1094/PHYTOFR-05-25-0052-A.
DOI: https://doi.org/10.1094/PHYTOFR-05-25-0052-A

Interpretive Summary: The fungus Fusarium sambucinum causes diseases on a broad range of plant hosts worldwide, including hop and potato. In this research, we obtained two isolates of the fungus from a hop plant with Fusarium canker and a potato tuber with dry rot. The genomes of these isolates were sequenced to provide a resource for other researchers and to facilitate future work to understand the diversity of the organisms and genes associated with economically important traits. We generated two genomes of exceptionally high quality, with at least 89× coverage and chromosome-level assemblies. We provide a brief summary of novel insights into the genomes in this resource announcement.

Technical Abstract: Fusarium sambucinum is a plant pathogen involved in multiple pathosystems including dry rot of potato (Solanum tuberosum) and Fusarium canker of hop (Humulus lupulus). As a causal agent of Fusarium canker, the pathogen is becoming increasingly important in the Pacific Northwest due to rising disease incidence over the last decade. To better understand the pathogen and facilitate future genomics research, two F. sambucinum isolates originally obtained from two common hosts in the United States, hop and potato, were sequenced and assembled using long read sequencing technology. Four chromosomes were identified along with a mitochondrial genome sequence, resulting in a total genome size of 38 Mb. The hop-derived genome assembly, OSU_Fsam_1.1, is the first F. sambucinum genome associated with Fusarium canker of hop and is of high quality with 89× coverage, a BUSCO completeness of 99.7%, and an N50 of 9.53 Mb. A total of 13,388 genes were annotated, including 39 secondary metabolite biosynthetic gene clusters, 1,219 carbohydrate active key enzymes, and 474 candidate effectors. The potato-derived genome, OSU_Fsam_2.1, has 185× coverage, 97.3% completeness, and N50 of 9.65 Mb. OSU_Fsam_1.1 and OSU_Fsam_2.1 are the first publically available chromosome-level assemblies for F. sambucinum and the first assembled mitochondrial genome of F. sambucinum. These resources will greatly enhance future genomics research in the Fusarium sambucinum species complex.