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Genomic characterization of nine Clostridioides difficile strains isolated from Korean patients with Clostridioides difficile infection
Gut Pathogens ( IF 4.2 ) Pub Date : 2021-09-16 , DOI: 10.1186/s13099-021-00451-3
Seung Woo Ahn 1 , Se Hee Lee 1 , Uh Jin Kim 2 , Hee-Chang Jang 2 , Hak-Jong Choi 1 , Hyon E Choy 3 , Seung Ji Kang 2 , Seong Woon Roh 1
Affiliation  

Clostridioides difficile infection (CDI) is an infectious nosocomial disease caused by Clostridioides difficile, an opportunistic pathogen that occurs in the intestine after extensive antibiotic regimens. Nine C. difficile strains (CBA7201–CBA7209) were isolated from nine patients diagnosed with CDI at the national university hospital in Korea, and the whole genomes of these strains were sequenced to identify their genomic characteristics. Comparative genomic analysis was performed using 51 reference strains and the nine isolated herein. Phylogenetic analysis based on 16S rRNA gene sequences confirmed that all 60 C. difficile strains belong to the genus Clostridioides, while core-genome tree indicated that they were divided into five groups, which was consistent with the results of MLST clade analysis. All strains were confirmed to have a clindamycin antibiotic resistance gene, but the other antibiotic resistance genes differ depending on the MLST clade. Interestingly, the six strains belonging to the sequence type 17 among the nine C. difficile strains isolated here exhibited unique genomic characteristics for PaLoc and CdtLoc, the two toxin gene loci identified in this study, and harbored similar antibiotic resistance genes. In this study, we identified the specific genomic characteristics of Korean C. difficile strains, which could serve as basic information for CDI prevention and treatment in Korea.

中文翻译:

从韩国艰难梭菌感染患者中分离出的 9 株艰难梭菌菌株的基因组特征

艰难梭菌感染 (CDI) 是一种由艰难梭菌引起的传染性院内疾病,艰难梭菌是一种在大量抗生素治疗后发生在肠道中的机会性病原体。从韩国国立大学医院诊断为 CDI 的 9 名患者中分离出 9 株艰难梭菌菌株(CBA7201-CBA7209),并对这些菌株的全基因组进行测序以鉴定其基因组特征。使用 51 种参考菌株和本文中分离的 9 种进行比较基因组分析。基于16S rRNA基因序列的系统发育分析证实60株艰难梭菌均属于梭菌属,而核心基因组树表明它们分为5组,这与MLST进化枝分析的结果一致。所有菌株都被证实具有克林霉素抗生素抗性基因,但其他抗生素抗性基因因 MLST 进化枝而异。有趣的是,在此处分离的九个艰难梭菌菌株中,属于序列类型 17 的六个菌株展示了本研究中鉴定的两个毒素基因位点 PaLoc 和 CdtLoc 的独特基因组特征,并且具有相似的抗生素抗性基因。在这项研究中,我们确定了韩国艰难梭菌菌株的特定基因组特征,可以作为韩国 CDI 预防和治疗的基础信息。此处分离的艰难梭菌菌株对 PaLoc 和 CdtLoc(本研究中鉴定的两个毒素基因位点)表现出独特的基因组特征,并具有相似的抗生素抗性基因。在这项研究中,我们确定了韩国艰难梭菌菌株的特定基因组特征,可以作为韩国 CDI 预防和治疗的基础信息。此处分离的艰难梭菌菌株对 PaLoc 和 CdtLoc(本研究中鉴定的两个毒素基因位点)表现出独特的基因组特征,并具有相似的抗生素抗性基因。在这项研究中,我们确定了韩国艰难梭菌菌株的特定基因组特征,可以作为韩国 CDI 预防和治疗的基础信息。
更新日期:2021-09-17
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