Dermatology Hospital of Fuzhou, Fuzhou 350025, PR China.
Dermatology Institute of Fuzhou, Dermatology Hospital of Fuzhou, Fuzhou 350025, PR China.
J Med Microbiol. 2024 Oct;73(10). doi: 10.1099/jmm.0.001914.
is an opportunistic pathogen that can infect both humans and animals, of which () being the most significant pathogenic green algae. The incidence of human diseases caused by has been on the rise, yet there is a significant gap in genetic research pertaining to the pathophysiological aspects of these infections. The aim of this study is to present the whole genome data from the clinical isolate InPu-22_FZ strain and to understand its genomic characteristics through comparative genomic analysis and phylogenetic tree analysis. Functional annotation of protein-coding genes and analysis of their pathogenicity are also conducted. We described the high-quality genome assembly of the clinical isolate InPu-22_FZ strain, achieved by combining Nanopore ONT and Illumina NovaSeq sequencing technologies. Phylogenetic tree was constructed to study the evolutionary relationship between the InPu-22_FZ strain and other species. The average nucleotide identity (ANI) analysis was used to assess the similarity between different species. Additionally, the size, distribution and composition of synteny blocks were also analysed to infer the evolutionary relationships of the genomes. The size of the assembled nuclear genome was 18.47 Mb with 48 contigs. Key features of the genome include high overall GC content (63.31%), high number (5478) and proportion (62.24%) of protein-coding genes and more than 96.71% of genes annotated for gene function. Phylogenetic analyses showed that the InPu-22_FZ strain and other clustered into one clade with a bootstrap value of 99% and collinearity analysis revealed high levels of collinearity with ATCC 16529. The ANI analysis revealed only a relatively high similarity (89-93%) to available genomes, suggesting the overall genomic novelty of InPu-22_FZ strain. Interestingly, the analysis of the pathogen-host interaction database unveiled and demonstrated reduced virulence of this strain, albeit it was isolated from a chronic upper-limb cutaneous infection. The study provides an in-depth insight into the genomic structure and biological function of the InPu-22_FZ strain, revealing the genetic basis of its pathogenicity and virulence.
是一种机会性病原体，可以感染人类和动物，其中（）是最重要的致病性绿藻。由引起的人类疾病的发病率一直在上升，但在这些感染的病理生理方面的遗传研究方面存在显著差距。本研究的目的是展示临床分离株 InPu-22_FZ 株的全基因组数据，并通过比较基因组分析和系统发育树分析了解其基因组特征。还对蛋白质编码基因进行了功能注释和致病性分析。我们描述了临床分离株 InPu-22_FZ 株的高质量基因组组装，通过结合 Nanopore ONT 和 Illumina NovaSeq 测序技术实现。构建系统发育树以研究 InPu-22_FZ 株与其他物种之间的进化关系。使用平均核苷酸同一性（ANI）分析评估不同物种之间的相似性。此外，还分析了同线性块的大小、分布和组成，以推断基因组的进化关系。组装核基因组的大小为 18.47 Mb，有 48 个 contigs。基因组的主要特征包括高总体 GC 含量（63.31%）、高数量（5478 个）和比例（62.24%）的蛋白质编码基因和超过 96.71%的基因被注释为基因功能。系统发育分析表明，InPu-22_FZ 株和其他聚类为一个分支，置信度为 99%，共线性分析显示与 ATCC 16529 具有高度的共线性。ANI 分析表明与现有基因组只有相对较高的相似性（89-93%），表明 InPu-22_FZ 株的整体基因组新颖性。有趣的是，病原体-宿主相互作用数据库的分析揭示并证明了该菌株的毒力降低，尽管它是从慢性上肢皮肤感染中分离出来的。该研究深入了解了 InPu-22_FZ 株的基因组结构和生物学功能，揭示了其致病性和毒力的遗传基础。
