Real-time PCR assay for robust detection and global surveillance of the Mycobacterium tuberculosis Haarlem genotype.

ABSTRACT: The Haarlem genotype is a significant yet understudied part of the Euro-American lineage of Mycobacterium tuberculosis, characterized by unique pathogenetic features. Spoligotyping is a primary method for its detection, but it is not suitable for isolates with long blocks of deleted spacers. We have developed a simple and robust method to detect the Haarlem genotype. The real-time PCR (RT-PCR) assay with LNA probes was designed to detect the Rv0282 211 C > T mutation that was shown to be specific for the Haarlem genotype. The developed RT-PCR assay was optimized with 68 isolates with known whole-genome sequencing (WGS) data and applied to the geographically and genetically diverse collection of 428 isolates. As a result, 396 isolates were concordantly assigned to either Haarlem or non-Haar

SUBMITTER: Tkachuk D 

PROVIDER: S-EPMC12699029 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature