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Amplicon Sequencing using the Long-Read Sequencing Technologies
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Alignment-Free Tool for Assemblies and Reads in Genomic Surveillance of Tuberculosis
Emerging Infectious Diseases
|October 23, 2026
Abstract:
Whole-genome sequencing strengthens tuberculosis surveillance, but incomplete lineage schemes can misclassify isolates. We developed Pathotypr, an alignment-free tool for assemblies and reads, using 2,145 markers derived from 26,813 genomes. Across 88,071 samples, Pathotypr improved concordance, expanded uncommon lineage coverage, and detected resistance markers, supporting molecular epidemiology and public health surveillance.
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