Calonectria ilicicola (anamorph: Cylindrocladium parasiticum) is a soilborne plant-pathogenic fungus with a broad host range, and it can cause red crown rot of soybean and Cylindrocladium black rot of peanut, which has become an emerging threat to crop production worldwide. Limited molecular studies have focused on Calonectria ilicicola and one of the possible difficulties is the lack of genomic resources. This study presents the first high quality and near-completed genome of C. ilicicola, using the Oxford Nanopore GridION sequencing platform. A total of 16 contigs were assembled and the genome of C. ilicicola isolate F018 was estimated to have 11 chromosomes. Currently, the C. ilicicola F018 genome represents the most contiguous assembly, which has the lowest contig number and the highest contig N₅₀ among all Calonectria genome resources. Putative protein-coding sequences and secretory proteins were estimated to be 17,308 and 1,930 in the C. ilicicola F018 genome, respectively; and the prediction was close to other plant-pathogenic fungi, such as Fusarium species, within the Nectriaceae family. The availability of this high-quality genome resource is expected to facilitate research on fungal biology and genetics of C. ilicicola and to support advanced understanding of pathogen virulence and disease management.

Copyright © 2021 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license.

Calonectria ilicicola (anamorph: Cylindrocladium parasiticum ) 是一种寄主范围广泛的土传植物病原真菌，可引起大豆红冠腐病和花生黑腐病，已成为全球农作物生产的新威胁。有限的分子研究集中在Calonectria ilicicola上，可能的困难之一是缺乏基因组资源。本研究使用牛津纳米孔 GridION 测序平台展示了第一个高质量和接近完整的C. ilicicola基因组。总共组装了 16 个重叠群，估计C. ilicicola分离株 F018的基因组具有 11 条染色体。目前，C. ilicicolaF018 基因组代表了最连续的组装，它在所有Calonectria基因组资源中具有最低的重叠群数和最高的重叠群 N ₅₀。推测的蛋白质编码序列和分泌蛋白在C. ilicicola F018 基因组中估计分别为 17,308 和 1,930 ；并且该预测与 Nectriaceae 家族中的其他植物病原真菌（例如镰刀菌属）接近。这种高质量基因组资源的可用性有望促进对C. ilicicola 的真菌生物学和遗传学的研究，并支持对病原体毒力和疾病管理的深入了解。

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