Providencia alcalifaciens whole genomes - hybrid assembly

In Norway there was an outbreak of acute haemorrhagic diarrhoea syndrome in dogs in 2019. Bacterial cultivation indicated that strains from the species Providencia alcalifaciens were the likely cause of the syndrome. Here we performed shotgun sequencing and hybrid whole genome assembly using MiSeq Illumina and Oxford nanopore sequence data on P. alcalifaciens isolates. The goal of our analysis was to determine if the isolates obtained from different diseased dogs were from a common point source. These analysis were performed as part of the Norwegian Veterinary Institute in-house project SEQTECH.

2019年，挪威爆发犬类急性出血性腹泻综合征疫情。细菌培养结果显示，产碱普罗威登斯菌（Providencia alcalifaciens）的菌株极有可能是该综合征的致病原。本研究针对分离得到的产碱普罗威登斯菌分离株，利用MiSeq Illumina与牛津纳米孔（Oxford Nanopore）测序数据开展鸟枪测序（shotgun sequencing）及混合式全基因组组装。本分析的目标为明确从不同患病犬只中分离得到的菌株是否源自同一共同传染源。该项分析作为挪威兽医研究所内部项目SEQTECH的一部分实施完成。