Départment de Phytologie, Faculté des sciences de l'agriculture et de l'alimentation, Université Laval, Quebec City, Quebec, Canada.
Centre de recherche et d'innovation sur les végétaux (CRIV), Université Laval, Quebec City, Quebec, Canada.
Genome Biol Evol. 2024 Jun 4;16(6). doi: 10.1093/gbe/evae122.
Plasmodiophora brassicae (Woronin, 1877), a biotrophic, obligate parasite, is the causal agent of clubroot disease in brassicas. The clubroot pathogen has been reported in more than 80 countries worldwide, causing economic losses of hundreds of millions every year. Despite its widespread impact, very little is known about the molecular strategies it employs to induce the characteristic clubs in the roots of susceptible hosts during infection, nor about the mechanisms it uses to overcome genetic resistance. Here, we provide the first telomere-to-telomere complete genome of P. brassicae. We generated ∼27 Gb of Illumina, Oxford Nanopore, and PacBio HiFi data from resting spores of strain Pb3A and produced a 25.3 Mb assembly comprising 20 chromosomes, with an N50 of 1.37 Mb. The BUSCO score, the highest reported for any member of the group Rhizaria (Eukaryota: 88.2%), highlights the limitations within the Eukaryota database for members of this lineage. Using available transcriptomic data and protein evidence, we annotated the Pb3A genome, identifying 10,521 protein-coding gene models. This high-quality, complete genome of P. brassicae will serve as a crucial resource for the plant pathology community to advance the much-needed understanding of the evolution of the clubroot pathogen.
根肿菌（Plasmodiophora brassicae）（Woronin，1877）是一种专性内寄生的生物营养型病原体，是十字花科作物根肿病的致病因子。该根肿病病原体已在全球 80 多个国家被报道，每年造成数亿美元的经济损失。尽管其影响广泛，但人们对其在感染过程中诱导感病宿主根中特征性根肿的分子策略，以及克服遗传抗性的机制知之甚少。在这里，我们提供了第一个根肿菌的端粒到端粒全基因组序列。我们从菌株 Pb3A 的休眠孢子中生成了约 27 Gb 的 Illumina、Oxford Nanopore 和 PacBio HiFi 数据，并生成了一个 25.3 Mb 的组装体，包含 20 条染色体，N50 为 1.37 Mb。最高可达 88.2%的 BUSCO 分数，突显了该谱系成员的真核生物数据库中的局限性。我们利用现有的转录组数据和蛋白质证据，对 Pb3A 基因组进行了注释，共鉴定出 10521 个编码蛋白的基因模型。这种高质量、完整的根肿菌基因组将成为植物病理学领域的一个重要资源，有助于深入了解根肿病病原体的进化。
