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Development of a loop-mediated isothermal amplification assay for the rapid detection of six common respiratory viruses
European Journal of Clinical Microbiology & Infectious Diseases ( IF 3.7 ) Pub Date : 2021-07-15 , DOI: 10.1007/s10096-021-04300-8
Nianzhen Chen 1 , Yuying Si 1 , Gen Li 1 , Ming Zong 1 , Wenyan Zhang 1 , Yangqin Ye 1 , Lieying Fan 1
Affiliation  

Due to the highly contagious and spreads quickly of respiratory infectious diseases (ADR), the availability of rapid, sensitive, and reliable diagnostic methods is essential for disease control. Here, we develop an approach based on loop-mediated isothermal amplification (LAMP) for the detection of influenza A virus (Flu A), Flu A subtypes H1N1and H3N2, influenza B virus (Flu B), respiratory syncytial virus (RSV) subtypes A and B, human adenovirus (HAdV), parainfluenza virus (PIV) subtypes 1 and 3, and human rhinovirus (HRV) simultaneously. We designed primers specific to detect respiratory viruses above, optimized the RT-LAMP assay and evaluated it for its sensitivity and specificity of detection using real-time monitoring based on SYBR Green I. We also evaluated the result of our RT-LAMP assay on 638 nasopharyngeal swab specimens with the commercial RT-PCR by Cohen’s Kappa. The inconsistent results were verified by Sanger sequencing furtherly. The developed RT-LAMP assay displayed a detection limit of 1 × 102 copies/ml RNA close to that of RT-PCR; no cross-reactivity was observed in the 10 kinds of viruses studied. The results obtained with 638 clinical samples indicate that the developed method has high specificity (0.988–1) and sensitivity (0.863–1) for viruses studied, and the Kappa value of all viruses was more than 0.85 revealed an excellent agreement between the two methods. We developed an RT-LAMP-based method and optimized for the detection of common respiratory viruses. It may be a powerful tool for rapid and reliable clinical diagnosis of ADR in primary hospitals.



中文翻译:

用于快速检测六种常见呼吸道病毒的环介导等温扩增试验的开发

由于呼吸道传染病 (ADR) 具有高度传染性和快速传播性,因此快速、灵敏和可靠的诊断方法对于疾病控制至关重要。在这里,我们开发了一种基于环介导等温扩增 (LAMP) 的方法,用于检测甲型流感病毒 (Flu A)、甲型流感亚型 H1N1 和 H3N2、乙型流感病毒 (Flu B)、呼吸道合胞病毒 (RSV) 亚型 A B、人类腺病毒 (HAdV)、副流感病毒 (PIV) 亚型 1 和 3,以及人类鼻病毒 (HRV)。我们设计了上述呼吸道病毒检测的特异性引物,优化了 RT-LAMP 检测,并使用基于 SYBR Green I 的实时监测对其检测的灵敏度和特异性进行了评估。我们还使用 Cohen's Kappa 的商业 RT-PCR 评估了我们对 638 份鼻咽拭子样本进行 RT-LAMP 检测的结果。不一致的结果通过 Sanger 测序进一步验证。开发的 RT-LAMP 检测显示检测限为 1 × 102拷贝/ml RNA 接近 RT-PCR;在研究的10种病毒中未观察到交叉反应。638个临床样本的结果表明,所开发的方法对研究的病毒具有较高的特异性(0.988-1)和灵敏度(0.863-1),所有病毒的Kappa值均大于0.85,表明两种方法之间具有良好的一致性. 我们开发了一种基于 RT-LAMP 的方法,并针对常见呼吸道病毒的检测进行了优化。它可能是基层医院快速、可靠地临床诊断 ADR 的有力工具。

更新日期:2021-07-15
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