Kumari Kiran, Rawat Vaishnavi, Shadan Afreen, Sharma Parva Kumar, Deb Sushanta, Singh Rajnish Prakash
Department of Bioengineering and Biotechnology, Birla Institute of Technology, Ranchi, Jharkhand, India.
Department of Microbiology, Dr. Shyama Prasad Mukerjee University, Ranchi, India.
Front Microbiol. 2023 Jun 20;14:1140249. doi: 10.3389/fmicb.2023.1140249. eCollection 2023.
A metal-resistant bacterium OS-1 was isolated from waste-contaminated soil in Ranchi City, India. The isolated strain OS-1 showed its growth at 25-45°C, pH 5.0-9.0, and in the presence of ZnSO (upto 5 mM). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain OS-1 belonged to the genus and was most closely related to species. To unravel the genomic features, we sequenced the complete genome of OS-1 using Illumina HiSeq 4,000 sequencing platform. The results of average nucleotide identity (ANI) analysis indicated the closest similarity of OS-1 to PRS09-11288 and DTSP2. The metabolic potential of OS-1 based on Clusters of Othologous Genes (COG) and Kyoto Encyclopedia of Genes and Genomes (KEGG) indicated a high number of genes related to stress protection, metal resistance, and multiple drug-efflux, etc., which is relatively rare in strains. Compared with other strains, OS-1 was found to have the unique β-lactam resistance and type VI secretion system (T6SS) gene. Additionally, its genomes encode various CAZymes such as glycoside hydrolases and other genes associated with lignocellulose breakdown, suggesting that strain OS-1 have strong biomass degradation potential. The presence of genomic complexity in the OS-1 genome indicates that horizontal gene transfer (HGT) might happen during evolution. Therefore, genomic and comparative genome analysis of strains is valuable for further understanding the mechanism of resistance to metal stress and opens a perspective to exploit a newly isolated bacterium for biotechnological applications.
从印度兰契市受废物污染的土壤中分离出一株耐金属细菌OS-1。分离出的菌株OS-1在25-45°C、pH 5.0-9.0以及存在ZnSO（高达5 mM）的条件下均能生长。基于16S rRNA基因序列的系统发育分析表明，菌株OS-1属于该属，且与该物种关系最为密切。为了解其基因组特征，我们使用Illumina HiSeq 4000测序平台对OS-1的全基因组进行了测序。平均核苷酸同一性（ANI）分析结果表明，OS-1与PRS09-11288和DTSP2的相似性最高。基于直系同源基因簇（COG）和京都基因与基因组百科全书（KEGG）对OS-1的代谢潜力分析表明，有大量与应激保护、金属抗性和多种药物外排等相关的基因，这在该菌株中相对少见。与其他该菌株相比，发现OS-1具有独特的β-内酰胺抗性和VI型分泌系统（T6SS）基因。此外，其基因组编码各种碳水化合物活性酶，如糖苷水解酶以及其他与木质纤维素分解相关的基因，这表明菌株OS-1具有很强的生物质降解潜力。OS-1基因组中存在基因组复杂性表明，在进化过程中可能发生了水平基因转移（HGT）。因此，对该菌株进行基因组和比较基因组分析对于进一步了解金属应激抗性机制具有重要价值，并为开发新分离的细菌用于生物技术应用开辟了前景。
