Hounmanou Yaovi M G, Dalsgaard Anders, Sopacua Tirzania Frannetta, Uddin Gazi Md Noor, Leekitcharoenphon Pimlapas, Hendriksen Rene S, Olsen John E, Larsen Marianne Halberg
Department of Veterinary and Animal Sciences, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark.
School of Chemical and Biological Engineering, Nanyang Technological University, Singapore, Singapore.
Front Microbiol. 2020 Aug 25;11:1985. doi: 10.3389/fmicb.2020.01985. eCollection 2020.
Weltevreden is increasingly reported from aquatic environments, seafood, and patients in several Southeast Asian countries. Using genome-wide analysis, we characterized . Weltevreden isolated from cultured shrimp and tilapia from Vietnam and China to study their genetic characteristics and relatedness to clinical isolates of . Weltevreden ST-365. The phylogenetic analysis revealed up to 312 single-nucleotide polymorphism (SNP) difference between tilapia isolates, whereas isolates from shrimp were genetically more closely related. Epidemiologically unrelated isolates from Vietnam were closely related to isolates from China, e.g., 20 SNPs differences between strains 28V and 75C. In comparison with strains from other parts of the world, our environmental isolates predominantly clustered within the continental South Asia lineage, constituted mostly of strains from human stool with as low as seven SNPs difference, e.g., 30V versus Cont_ERR495254. All sequenced isolates were MLST type ST-365 and contained the major virulence-related genes encoded by the Pathogenicity Islands 1-5. Ten of the isolates harbored the FII(S) plasmid similar to the virulence genes-mediated plasmid pSPCV of Paratyphi C, and one isolate had the Q1 plasmid on the same contig with A/B, 2, and A resistance genes similar to the Q1 type, pNUC of Typhimurium. A pangenomic analysis yielded 7891 genes including a core genome of 4892 genes, with a closely related accessory genome content between clinical and environmental isolates (Benjamini > 0.05). In a search for differences that could explain the higher prevalence of . Weltevreden in aquatic samples, genomes were compared with those of other serovars. Weltevreden revealed specific regions harboring X (Fructose-1;6-bisphosphatase; class II), C (dTDP-4-dehydrorhamnose 3;5-epimerase), and B (PTS Mannitol-specific cryptic phosphotransferase enzyme IIA component) involved in carbohydrate biosynthesis pathways. Our study builds grounds for future experiments to determine genes or pathways that are essential when Weltevreden are in aquatic environments and microbial interactions providing survival advantages to Weltevreden in such environments.
在几个东南亚国家，水生环境、海鲜及患者中越来越多地报告了韦尔泰弗里登菌。我们通过全基因组分析，对从越南和中国养殖的虾和罗非鱼中分离出的韦尔泰弗里登菌进行了特征描述，以研究其遗传特征以及与韦尔泰弗里登菌ST-365临床分离株的相关性。系统发育分析显示，罗非鱼分离株之间存在多达312个单核苷酸多态性（SNP）差异，而虾的分离株在遗传上关系更为密切。越南流行病学上不相关的分离株与中国的分离株密切相关，例如菌株28V和75C之间有20个SNP差异。与世界其他地区的菌株相比，我们的环境分离株主要聚集在南亚大陆谱系内，主要由人类粪便中的菌株组成，差异低至7个SNP，例如30V与Cont_ERR495254相比。所有测序的分离株均为多位点序列分型ST-365型，并包含由致病岛1-5编码的主要毒力相关基因。其中10株携带与副伤寒C的毒力基因介导质粒pSPCV相似的FII(S)质粒，1株在同一重叠群上有Q1质粒，带有与鼠伤寒沙门氏菌Q1型pNUC相似的A/B、2和A抗性基因。泛基因组分析产生了7891个基因，包括一个4892个基因的核心基因组，临床和环境分离株之间的辅助基因组内容密切相关（本杰明校正P值>0.05）。为了寻找能够解释韦尔泰弗里登菌在水生样本中较高流行率的差异，我们将这些基因组与其他血清型的基因组进行了比较。韦尔泰弗里登菌显示出特定区域，这些区域含有参与碳水化合物生物合成途径的X（果糖-1；6-二磷酸酶；II类）、C（dTDP-4-脱氢鼠李糖3；5-表异构酶）和B（PTS甘露醇特异性隐蔽磷酸转移酶IIA组分）。我们的研究为未来的实验奠定了基础，以确定韦尔泰弗里登菌在水生环境中以及微生物相互作用时必不可少的基因或途径，这些相互作用为韦尔泰弗里登菌在这种环境中提供了生存优势。
