Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, 24 Chemin de Borde Rouge, Auzeville, BP42617, 31326 Castanet-Tolosan, France.
INRA, US 1426, GeT-PlaGe, Genotoul, Castanet-Tolosan, France.
G3 (Bethesda). 2020 Feb 6;10(2):431-436. doi: 10.1534/g3.119.400746.
is a soil born free living oomycete able to parasitize fungi and oomycetes prey, including important plant and animals pathogens. can colonize endophytically the root tissues of diverse plants where it induces plant defenses. Here we report the first long-read genome sequencing of a strain sequenced by PacBio technology. Sequencing of genomic DNA loaded onto six SMRT cells permitted the acquisition of 913,728 total reads resulting in 112X genome coverage. The assembly and polishing of the genome sequence yielded180 contigs (N50 = 1.3 Mb; L50 = 12). The size of the genome assembly is 41.9 Mb with a longest contig of 2.7 Mb and 15,007 predicted protein-coding genes among which 95.25% were supported by RNAseq data, thus constituting a new genome reference. This data will facilitate genomic comparisons of species that are commensal, beneficial or pathogenic on plant, or parasitic on fungi and oomycete to identify key genetic determinants underpinning their diverse lifestyles. In addition comparison with plant pathogenic or zoopathogenic species will illuminate genomic adaptations for pathogenesis toward widely diverse hosts.
是一种土生土长的自由生活的卵菌，能够寄生真菌和卵菌的猎物，包括重要的植物和动物病原体。能够内生性地定殖于各种植物的根组织中，在那里它会诱导植物防御。在这里，我们报告了第一个由 PacBio 技术对菌株进行的长读长基因组测序。对加载到六个 SMRT 细胞上的基因组 DNA 进行测序，获得了 913,728 条总读数，基因组覆盖率为 112X。基因组序列的组装和抛光得到了 180 个 contigs（N50 = 1.3 Mb；L50 = 12）。基因组组装的大小为 41.9 Mb，最长的 contig 为 2.7 Mb，预测了 15007 个蛋白编码基因，其中 95.25%得到了 RNAseq 数据的支持，因此构成了一个新的 基因组参考。该数据将促进对在植物上共生、有益或致病，或寄生在真菌和卵菌上的物种进行基因组比较，以确定支持其多种生活方式的关键遗传决定因素。此外，与植物病原或动物病原物种的比较将阐明针对广泛不同宿主的致病的基因组适应性。
