National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention (China CDC), State Key Laboratory of Infectious Disease Prevention and Control, Beijing 102206, PR China.
Center for Human Pathogenic Culture Collection, China CDC, Beijing 102206, PR China.
Microb Genom. 2022 Feb;8(2). doi: 10.1099/mgen.0.000786.
is widely distributed in marine and freshwater habitats, and has been proved to be an emerging marine zoonotic and human pathogen. However, the genomic characteristics and pathogenicity of are unclear. Here, the whole-genome features of 55 . strains isolated from different sources were described. Pan-genome analysis yielded 2863 (19.4 %) genes shared among all strains. Functional annotation of the core genome showed that the main functions are focused on basic lifestyle such as metabolism and energy production. Meanwhile, the phylogenetic tree of the single nucleotide polymorphisms (SNPs) of core genome divided the 55 strains into three clades, with the majority of strains from China falling into the first two clades. As for the accessory genome, 167 genomic islands (GIs) and 65 phage-related elements were detected. The CRISPR-Cas system with a high degree of confidence was predicted in 23 strains. The GIs carried a suite of virulence genes and mobile genetic elements, while prophages contained several transposases and integrases. Horizontal genes transfer based on homology analysis indicated that these GIs and prophages were parts of major drivers for the evolution and the environmental adaptation of . In addition, a rich putative virulence-associated gene pool was found. Eight classes of antibiotic-associated resistance genes were detected, and the carriage rate of β-lactam resistance genes was 100 %. In conclusion, exhibits a high intra-species diversity in the aspects of population structure, virulence-associated genes and potential drug resistance, which is helpful for its evolution in pathogenesis and environmental adaptability.
广泛分布于海洋和淡水生境中，已被证实是一种新兴的海洋人畜共患病原体和人类病原体。然而， 的基因组特征和致病性尚不清楚。在此，我们描述了 55 株来自不同来源的 分离株的全基因组特征。泛基因组分析得到了 2863 个（19.4%）存在于所有菌株间的共有基因。核心基因组的功能注释表明，其主要功能集中在代谢和能量产生等基本生活方式上。同时，基于核心基因组单核苷酸多态性（SNP）的系统发育树将 55 株 分为三个分支，其中来自中国的大多数菌株分属于前两个分支。至于附属基因组，检测到 167 个基因组岛（GIs）和 65 个噬菌体相关元件。23 株 中预测到了高度置信度的 CRISPR-Cas 系统。GIs 携带了一系列毒力基因和可移动遗传元件，而噬菌体则包含了几个转座酶和整合酶。基于同源性分析的水平基因转移表明，这些 GIs 和噬菌体是 进化和环境适应的主要驱动力之一。此外，还发现了丰富的潜在与毒力相关的基因库。检测到 8 类抗生素相关耐药基因，β-内酰胺类耐药基因的携带率为 100%。总之， 在种群结构、毒力相关基因和潜在药物耐药性方面表现出高度的种内多样性，有助于其在发病机制和环境适应性方面的进化。
