Martak Daniel, Valot Benoît, Sauget Marlène, Cholley Pascal, Thouverez Michelle, Bertrand Xavier, Hocquet Didier
Laboratoire d'Hygiène Hospitalière, Centre Hospitalier Régional Universitaire, Besançon, France.
UMR 6249, Laboratoire Chrono-Environnement, Centre National de la Recherche Scientifique-Université de Franche-Comté, Besançon, France.
Front Microbiol. 2019 Jun 26;10:1440. doi: 10.3389/fmicb.2019.01440. eCollection 2019.
The typing of epidemic bacterial pathogens in hospitals relies on DNA-based, expensive, and time-consuming techniques, that are often limited to retrospective studies. However, the quick identification of epidemic pathogens in the routine of the microbiology laboratories would expedite infection control procedures that limit the contamination of new patients. IR Biotyper (Bruker Daltonics GmbH) is a new typing machine based on Fourier-transform infrared (FTIR) spectroscopy which generates spectra, aiming at typing the micro-organisms within 3 h. This technique discriminates the isolates by exploring the differences of the surface cell polysaccharides. In this work, we evaluated the ability of the FTIR spectroscopy to recognize Gram-negative bacilli clones responsible for hospital outbreaks. Isolates of ( = 100), ( = 16), ( = 23), and ( = 20) were typed by the reference methods Multi-Locus Sequence Typing (defining sequence types - STs) along with or without pulsed field gel electrophoresis (PFGE) (defining pulsotypes), and by FTIR spectroscopy. The congruence of FTIR spectroscopy clustering was compared to those of MLST and PFGE by Adjusted Rand index and Adjusted Wallace coefficient. We found that FTIR spectroscopy accurately clustered , , and isolates belonging to the same ST. The performance of the FTIR spectroscopy was slightly lower for . Furthermore, FTIR spectroscopy also correctly clustered isolates having a similar pulsotype. Overall, the IR Biotyper can quickly (in less than 3 h) detect the spread of clones of , , , and . The use of this technique by clinical microbiology laboratories may help to tackle the spread of epidemic clones by the quick implementation of infection control measures.
医院中流行细菌病原体的分型依赖于基于DNA的、昂贵且耗时的技术，这些技术通常仅限于回顾性研究。然而，在微生物实验室日常工作中快速鉴定流行病原体将加快感染控制程序，从而限制新患者的感染。红外生物分型仪（布鲁克道尔顿公司）是一种基于傅里叶变换红外（FTIR）光谱的新型分型仪器，它能生成光谱，旨在在3小时内对微生物进行分型。该技术通过探索表面细胞多糖的差异来区分分离株。在这项研究中，我们评估了FTIR光谱识别导致医院感染暴发的革兰氏阴性杆菌克隆的能力。通过参考方法多位点序列分型（定义序列类型 - STs）以及有无脉冲场凝胶电泳（PFGE）（定义脉冲型），和FTIR光谱对100株肺炎克雷伯菌、16株鲍曼不动杆菌、23株铜绿假单胞菌和20株大肠埃希菌的分离株进行分型。通过调整兰德指数和调整华莱士系数将FTIR光谱聚类的一致性与MLST和PFGE的一致性进行比较。我们发现FTIR光谱能准确地将属于同一ST的肺炎克雷伯菌、鲍曼不动杆菌和铜绿假单胞菌分离株聚类。对于大肠埃希菌，FTIR光谱的性能略低。此外，FTIR光谱也能正确地将具有相似脉冲型的大肠埃希菌分离株聚类。总体而言，红外生物分型仪可以快速（不到3小时）检测肺炎克雷伯菌、鲍曼不动杆菌、铜绿假单胞菌和大肠埃希菌克隆的传播。临床微生物实验室使用该技术可能有助于通过快速实施感染控制措施来应对流行克隆的传播。
