Institute for Biomedical Research of A Coruña (INIBIC), A Coruña, Spain; Carlos III Health Institute (ISCIII), Madrid, Spain.
Institute for Biomedical Research of A Coruña (INIBIC), A Coruña, Spain.
J Hosp Infect. 2023 Dec;142:18-25. doi: 10.1016/j.jhin.2023.09.015. Epub 2023 Oct 5.
The global spread of Klebsiella pneumoniae ST15, causing multi-continental outbreaks, contributes to the movement of resistance genes between clones increasing the antimicrobial resistance crisis. The genomic traits providing it with the ability to outcompete other bacteria and cause epidemics remain unclear.
To identify the specific genomic traits of K. pneumoniae ST15 to develop a diagnostic test.
An outbreak caused by K. pneumoniae occurred in Hospital A Coruña, Spain. Antimicrobial susceptibility analysis and molecular typing (PGFE and MLST) were performed. One isolate of each sequence type was selected for whole-genome sequencing analysis. Comparative analysis of genomes was performed using RAST. BLASTn was used to evaluate the presence of the fhaC and kpiD genes. Two hundred and ninety-four K. pneumoniae from a Spanish nationwide collection were analysed by PCR.
Genotyping showed that 87.5% of the isolates tested belonged to a clone with a unique PFGE pattern which corresponded to ST15. Comparative genomic analysis of the different STs enabled us to determine the specific genomic traits of K. pneumoniae ST15. Two adherence-related systems (Kpi and KpFhaB/FhaC) were specific markers of this clone. Multiplex-PCR analysis with kpiD and fhaC oligonucleotides revealed that K. pneumoniae ST15 is specifically detected with a sensitivity of 100% and a specificity of 97.76%. The PCR results showed 100% concordance with the MLST and whole-genome sequencing data.
K. pneumoniae ST15 possesses specific genomic traits that could favour its dissemination. They could be used as targets to detect K. pneumoniae ST15 with high sensitivity and specificity.
肺炎克雷伯菌 ST15 的全球传播导致了多大陆的疫情爆发，这导致了耐药基因在克隆之间的转移，加剧了抗菌药物耐药性危机。其具有竞争其他细菌并引发流行的基因组特征尚不清楚。
确定肺炎克雷伯菌 ST15 的特定基因组特征，以开发诊断测试。
西班牙拉科鲁尼亚医院发生了一起肺炎克雷伯菌疫情。进行了药敏分析和分子分型（PGFE 和 MLST）。选择每个序列型的一个分离株进行全基因组测序分析。使用 RAST 进行比较基因组分析。使用 BLASTn 评估 fhaC 和 kpiD 基因的存在。对来自西班牙全国范围内的 294 株肺炎克雷伯菌进行了 PCR 分析。
基因分型显示，87.5%的测试分离株属于具有独特 PFGE 模式的克隆，与 ST15 相对应。对不同 ST 的比较基因组分析使我们能够确定肺炎克雷伯菌 ST15 的特定基因组特征。两个附着相关系统（Kpi 和 KpFhaB/FhaC）是该克隆的特异性标记。使用 kpiD 和 fhaC 寡核苷酸的多重 PCR 分析显示，肺炎克雷伯菌 ST15 的检测灵敏度为 100%，特异性为 97.76%。PCR 结果与 MLST 和全基因组测序数据完全一致。
肺炎克雷伯菌 ST15 具有特定的基因组特征，可能有利于其传播。它们可以用作检测肺炎克雷伯菌 ST15 的高灵敏度和特异性的靶标。
