PDF(Pubmed)
Abstract：
To assess the genomic diversity of Fusarium oxysporum f. sp. lini strains and compile a comprehensive gene repertoire, we constructed a pangenome using 13 isolates from four different clonal lineages, each exhibiting distinct levels of virulence. Syntenic analyses of two selected genomes revealed significant chromosomal rearrangements unique to each genome. A comprehensive examination of both core and accessory pangenome content and diversity points at an open genome state. Additionally, Gene Ontology (GO) enrichment analysis indicated that non-core pangenome genes are associated with pathogen recognition and immune signaling. Furthermore, the Folini pansecterome, encompassing secreted proteins critical for fungal pathogenicity, primarily consists of three functional classes: effector proteins, CAZYmes, and proteases. These three classes account for approximately 3.5% of the pangenome. Each functional class within the pansecterome was meticulously annotated and characterized with respect to pangenome category distribution, PFAM domain frequency, and strain virulence assessment. This analysis revealed that highly virulent isolates have specific types of PFAM domains that are exclusive to them. Upon examining the repertoire of SIX genes known for virulence in other formae speciales, it was found that all isolates had a similar gene content except for two, which lacked SIX genes entirely.
摘要：
评估尖孢镰刀菌的基因组多样性。lini菌株和编制一个全面的基因库，我们使用来自四个不同克隆谱系的13个分离株构建了pangenome，每个都表现出不同的毒力水平。两个选定基因组的合成分析揭示了每个基因组特有的显著染色体重排。在开放基因组状态下，对核心和附属pangenome含量和多样性点进行全面检查。此外,基因本体论（GO）富集分析表明，非核心pangenome基因与病原体识别和免疫信号有关。此外，Folini全基因组，包括对真菌致病性至关重要的分泌蛋白，主要由三个功能类别组成：效应蛋白，CAZYmes,和蛋白酶。这三个类别约占pangenome的3.5％。关于pangenome类别分布，对pansecterome中的每个功能类进行了精心注释和表征，PFAM域频率，和毒株毒力评估。该分析表明，高毒力分离株具有特定类型的PFAM结构域，这些结构域是它们独有的。在检查了其他特殊形式中已知毒力的六个基因库后，发现除了两个分离株之外，所有分离株的基因含量都相似，完全缺乏六个基因。
