ONT-based draft genome assembly and annotation of Alternaria atra

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Abstract

Species of Alternaria (phylum Ascomycota, family Pleosporaceae) are known as serious plant pathogens, causing major losses on a wide range of crops. Alternaria atra (previously known as Ulocladium atrum) can grow as a saprophyte on many hosts and causes Ulocladium blight on potato. It has been reported that it can also be used as a biocontrol agent against Botrytis cinerea. Here, we present a scaffold-level reference genome assembly for A. atra. The assembly contains 43 scaffolds with a total length of 39.62 Mbp, with scaffold N50 of 3,893,166 bp, L50 of 4, and the longest 10 scaffolds containing 89.9% of the assembled data. RNA-sequencing-guided gene prediction using BRAKER resulted in 12,173 protein-coding genes with their functional annotation. This first high-quality reference genome assembly and annotation for A. atra can be used as a resource for studying evolution in the highly complicated Alternaria genus and might help in understanding the mechanisms defining its role as pathogen or biocontrol agent.

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Bonthala, B., Small, C. S., Lutz, M. A., Graf, A., Krebs, S., Sepulveda, G., & Stam, R. (2021). ONT-based draft genome assembly and annotation of Alternaria atra. Molecular Plant-Microbe Interactions, 34(7). https://doi.org/10.1094/MPMI-01-21-0016-A

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