SCB Medical College, Cuttack, India.
School of Biotechnology, KIIT University, Bhubaneswar 751024, India.
Gene. 2023 May 5;863:147248. doi: 10.1016/j.gene.2023.147248. Epub 2023 Feb 2.
Salmonellosis, a food-borne illnesses caused by enteropathogenic bacterium Salmonella spp., is a continuous concern in both developed and developing countries. This study was carried out to perform an in-depth examination of an MDR Salmonella strain isolated from gastroenteritis patients in Odisha, India, in order to understand the genomic architecture, distribution of pathogenic island regions, and virulence factor diversity. Fecal samples were obtained from individuals with acute gastroenteritis and further subjected to panel of biochemical tests. The IlluminaHiSeq X sequencer system was used to generate whole-genome sequencing. The draft genome was submitted to gene prediction and annotation using RAST annotation system. Pathogenicity Island database and bioinformatics pipeline were used to find Salmonella pathogenicity islands (SPI) from the built scaffold. The gene expression in SPI1 and SPI2 encoded regions was investigated using qRT-PCR. The taxonomic position of Salmonella enterica subsp. enterica serovar Typhimurium was validated by serotype analysis and 16S rRNA based phylogenetic analysis. The de-novo genome assembly showed total length of 5,034,110 bp and produced 37 contigs. There are nine prophage areas, comprising of 12 regions and scaffold 8 contained a single plasmid, IncFIB. The isolate contains six known SPI genes content which was shown to be largely conserved from SPI1 to SPI2. We identified the sit ABCD cluster regulatory cascade and acquired antibiotic resistance genes in S. enterica Typhimurium ms204. Further research may aid in the correct diagnosis and monitoring of MDR Salmonella strains with a variety of physiological activities.
肠炎沙门氏菌病是由肠道致病菌沙门氏菌引起的食源性疾病，在发达国家和发展中国家都是一个持续存在的问题。本研究旨在对从印度奥里萨邦肠炎患者中分离的一株多药耐药沙门氏菌进行深入研究，以了解其基因组结构、致病岛区域分布和毒力因子多样性。从急性肠胃炎患者中采集粪便样本，并进一步进行一系列生化试验。使用 IlluminaHiSeq X 测序系统进行全基因组测序。使用 RAST 注释系统对 drafted 基因组进行基因预测和注释。使用致病性岛数据库和生物信息学分析流程从构建的支架中查找沙门氏菌致病性岛（SPI）。使用 qRT-PCR 研究 SPI1 和 SPI2 编码区的基因表达。通过血清型分析和基于 16S rRNA 的系统发育分析验证肠炎沙门氏菌亚种肠炎沙门氏菌血清型鼠伤寒的分类地位。从头基因组组装显示总长度为 5,034,110 bp，产生 37 个 contigs。有九个噬菌体区域，包含 12 个区域，支架 8 包含一个单独的质粒 IncFIB。该分离株含有六个已知的 SPI 基因，从 SPI1 到 SPI2 显示出很大的保守性。我们鉴定了 sit ABCD 簇调控级联，并在 S. enterica Typhimurium ms204 中获得了抗生素耐药基因。进一步的研究可能有助于正确诊断和监测具有多种生理活性的多药耐药沙门氏菌菌株。
