Simultaneous detection and differentiation of Mycobacterium tuberculosis and nontuberculous mycobacteria coexisting in patients with pulmonary tuberculosis by single-tube multiplex PCR

• Published in: Iranian journal of microbiology 2023-06, Vol.15 (3), p.401-407
• Main Authors: Heidari, Leila, Rafiei Dehbidi, Gholamreza, Farhadi, Ali, Kashkooli, Golnar Sami, Zarghampoor, Farzaneh, Namdari, Sepide, Seyyedi, Noorossadat, Fard, Saeid Amirzadh, Behzad-Behbahani, Abbas
• Format: Article
• Language: English
• Subjects: Isoniazid; Multiplex polymerase chain reaction; Mycobacterium tuberculosis; Nontuberculous mycobacteria; Original; Rifampin; Sputum
• ISSN: 2008-3289; 2008-4447
• DOI: 10.18502/ijm.v15i3.12900

In clinical diagnostics, molecular methods are used to detect bacilli (MTB) and to distinguish them from non-tuberculous mycobacteria (NTM). They are also used to make the right treatment decision for the patient as soon as possible. The aim of this study was to establish a rapid and novel multiplex PCR (mPCR) assay for the detection and differentiation of MTB and NTM in a single tube. 100 sputum samples positive for acid-fast bacilli (AFB) were included in this study. Mycobacterial culture, biochemical tests, and antibiotic susceptibility testing were performed on samples. After alkaline decontamination, total DNA was extracted from the samples. A primer pair targeting the gene, encoding the beta-subunit of RNA polymerase, was used to detect MTB and NTM, amplifying a 235-bp fragment of MTB and a 136-bp sequence of NTM. A pair of primers targeting a 190-bp fragment of the IS6110 region of MTB was also used to confirm the results. The sensitivity and specificity of the mPCR assay were evaluated using DNA extracted from standard strains. The amplified products were then analyzed by conventional agarose gel electrophoresis. Of 100 AFB smear-positive sputum samples, 92 MTB DNA, 7 NTM DNA, and one mixed-infection sample were identified in a single tube using mPCR assay. There was no correlation between the AFB degree of smear positivity and PCR results. Of seven NTM isolates, 6 (86%) were resistant to rifampin, isoniazid, and ethambutol, the three first-line anti-tuberculosis drugs. A single-tube mPCR assay based on the gene provides a rapid and reliable means of detecting and differentiating MTB and NTM in sputum specimens.