High resolution melting analysis for the differentiation of Mycobacterium species

• DOI: 10.1099/jmm.0.072611-0
• Publication Date: 2014-07-19T04:04:19Z
• Authors: Rahizan Issa; Hatijah Abdul; Siti Hasmah Hashim; Valentinus H. Ser...; Nurul ‘Aishah Shaili; Nurul Akma Mohd H...
• Keywords: DNA, Bacterial; 0301 basic medicine; Mycobacterium Infections; Molecular Sequence Data; Sequence Analysis, DNA; Real-Time Polymerase Chain Reaction; DNA, Ribosomal; Mycobacterium; 3. Good health; 03 medical and health sciences; Molecular Diagnostic Techniques; RNA, Ribosomal, 16S; Humans; Transition Temperature

A quantitative real-time PCR (qPCR) followed by high resolution melting (HRM) analysis was developed for the differentiation of Mycobacterium species. Rapid differentiation of Mycobacterium species is necessary for the effective diagnosis and management of tuberculosis. In this study, the 16S rRNA gene was tested as the target since this has been identified as a suitable target for the identification of mycobacteria species. During the temperature gradient and primer optimization process, the melting peak (Tm) analysis was determined at a concentration of 50 ng DNA template and 0.3, 0.4 and 0.5 µM primer. The qPCR assay for the detection of other mycobacterial species was done at the Tm and primer concentration of 62 °C and 0.4 µM, respectively. The HRM analysis generated cluster patterns that were specific and sensitive to distinguished small sequence differences of the Mycobacterium species. This study suggests that the 16S rRNA-based real-time PCR followed by HRM analysis produced unique cluster patterns for species of Mycobacterium and could differentiate the closely related mycobacteria species.