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bioRxiv · 10.1101/2021.08.11.456025

A reference genome sequence resource for the sugar beet root rot pathogen Aphanomyces cochlioides

Botkin, J.·Chanda, A. K.·Martin, F. N.·Hirsch, C. D.
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Abstract

Aphanomyces cochlioides, the causal agent of damping-off and root rot of sugar beet (Beta vulgaris L.), is a soil-dwelling oomycete responsible for yield losses in all major sugar beet growing regions. Currently, genomic resources for A. cochlioides are limited. Here we report a de novo genome assembly using a combination of long-read MinION (Oxford Nanopore Technologies) and short-read Illumina sequence data for A. cochlioides isolate 103-1, from Breckenridge, MN. The assembled genome was 76.3 Mb, with a contig N50 of 2.6 Mb. The reference assembly was annotated and was composed of 32.1% repetitive elements and 20,274 gene models. This high-quality genome assembly of A. cochlioides will be a valuable resource for understanding genetic variation, virulence factors, and comparative genomics of this important sugar beet pathogen.

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Botkin, J., Chanda, A. K., Martin, F. N., Hirsch, C. D.. 2021-08-12. A reference genome sequence resource for the sugar beet root rot pathogen Aphanomyces cochlioides. https://doi.org/10.1101/2021.08.11.456025

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