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In-host population dynamics of Mycobacterium tuberculosis complex during active disease.


ABSTRACT: Tuberculosis (TB) is a leading cause of death globally. Understanding the population dynamics of TB's causative agent Mycobacterium tuberculosis complex (Mtbc) in-host is vital for understanding the efficacy of antibiotic treatment. We use longitudinally collected clinical Mtbc isolates that underwent Whole-Genome Sequencing from the sputa of 200 patients to investigate Mtbc diversity during the course of active TB disease after excluding 107 cases suspected of reinfection, mixed infection or contamination. Of the 178/200 patients with persistent clonal infection >2 months, 27 developed new resistance mutations between sampling with 20/27 occurring in patients with pre-existing resistance. Low abundance resistance variants at a purity of ?19% in the first isolate predict fixation in the subsequent sample. We identify significant in-host variation in 27 genes, including antibiotic resistance genes, metabolic genes and genes known to modulate host innate immunity and confirm several to be under positive selection by assessing phylogenetic convergence across a genetically diverse sample of 20,352 isolates.

SUBMITTER: Vargas R 

PROVIDER: S-EPMC7884073 | biostudies-literature | 2021 Feb

REPOSITORIES: biostudies-literature

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In-host population dynamics of <i>Mycobacterium tuberculosis</i> complex during active disease.

Vargas Roger R   Freschi Luca L   Marin Maximillian M   Epperson L Elaine LE   Smith Melissa M   Oussenko Irina I   Durbin David D   Strong Michael M   Salfinger Max M   Farhat Maha Reda MR  

eLife 20210201


Tuberculosis (TB) is a leading cause of death globally. Understanding the population dynamics of TB's causative agent <i>Mycobacterium tuberculosis</i> complex (Mtbc) in-host is vital for understanding the efficacy of antibiotic treatment. We use longitudinally collected clinical Mtbc isolates that underwent Whole-Genome Sequencing from the sputa of 200 patients to investigate Mtbc diversity during the course of active TB disease after excluding 107 cases suspected of reinfection, mixed infectio  ...[more]

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