Long read metagenomic sequencing allows sensitive detection of the high impact plant pathogen Xylella fastidiosa and phylogenetic reconstruction with outbreak resolution

Using the ONT MinION long sequencer, we can detect and precisely identify Xylella fastidiosa subspecies. Using a metagenome-assembled genome (MAG) with enough quality, phylogenetic reconstruction with SNP resolution was achieved. The MAG was placed in a clade with isolated form Georgia, USA.

本研究采用ONT MinION长读长测序仪，能够实现对苛养木杆菌（Xylella fastidiosa）亚种的检测与精准鉴定。通过构建质量合格的宏基因组组装基因组（metagenome-assembled genome, MAG），我们成功完成了具备单核苷酸多态性（single nucleotide polymorphism, SNP）分辨率的系统发育重建。该MAG与从美国佐治亚州分离得到的菌株处于同一进化枝内。