Evolution of Metabolic Diversity Laboratory, Centro de Investigación y Estudios Avanzados del Instituto Politécnico Nacional (Cinvestav-IPN), Irapuato, Guanajuato, Mexico.
Institute of Biology, Leiden University, Leiden, The Netherlands.
Microb Genom. 2024 Oct;10(10). doi: 10.1099/mgen.0.001309.
The Actinomycetota (formerly Actinobacteria) genus includes phytopathogens with devasting effects in several crops. , the causal agent of tomato bacterial canker, is the most notorious species of the genus. Yet, its origin and natural reservoirs remain elusive, and its populations show pathogenicity profiles with unpredictable plant disease outcomes. Here, we generate and analyse a decade-long genomic dataset of from wild and commercial tomato cultivars, providing evolutionary insights that directed phenotypic characterization. Our phylogeny situates the last common ancestor of next to isolates from grasses rather than to the sole strain we could isolate from wild tomatoes. Pathogenicity profiling of isolates, together with and as sister taxa and the wild tomato strain, was found to be congruent with the proposed phylogenetic relationships. We then identified gene enrichment after the evolutionary event, leading to the appearance of the clade, including known pathogenicity factors but also hitherto unnoticed genes with the ability to encode adaptive traits for a pathogenic lifestyle. The holistic perspective provided by our evolutionary analyses hints towards a host shift event as the origin of as a tomato pathogen and the existence of pathogenic genes that remain to be characterized.
放线菌门（以前称为放线菌）属包括对几种作物具有破坏性影响的植物病原体。番茄溃疡病菌是该属中最臭名昭著的物种。然而，其起源和自然宿主仍然难以捉摸，其种群表现出具有不可预测植物病害结果的致病性特征。在这里，我们生成并分析了来自野生和商业番茄品种的长达十年的基因组数据集，提供了进化见解，指导了表型特征描述。我们的系统发育将 的最后一个共同祖先定位在与草的分离株相邻，而不是与我们只能从野生番茄中分离出的唯一菌株相邻。对 分离株的致病性分析，以及与 和 作为姐妹分类群和野生番茄菌株一起，与提出的系统发育关系一致。然后，我们确定了进化事件后基因富集的情况，导致出现了 进化枝，其中包括已知的致病性因素，但也包括迄今尚未被注意到的具有编码适应致病生活方式的适应性特征的基因。我们的进化分析提供的整体观点暗示了宿主转移事件是 作为番茄病原体的起源，并且存在有待鉴定的致病性基因。
