Alignment-Free Tool for Assemblies and Reads in Genomic Surveillance of Tuberculosis.

Authors

Paula Ruiz-Rodriguez, Mireia Coscollá

Published in

Emerging infectious diseases. Volume 32. Issue 11. Pages 1913-1918.

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.

PMID:
42912449
Bibliographic data and abstract were imported from PubMed on 24 Oct 2026.

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