1. Atypical Genetic Basis of Pyrazinamide Resistance in Monoresistant Mycobacterium tuberculosis
- Author
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Jim Werngren, Faramarz Valafar, Sven E Hoffner, Mikael Mansjö, Tyler Marbach, and Samuel J. Modlin
- Subjects
pyrazinamide ,antibiotic resistance ,Tuberculosis ,monoresistance ,pncA ,pyrazinamide resistance ,Antitubercular Agents ,Microbial Sensitivity Tests ,Amidohydrolases ,Mycobacterium tuberculosis ,03 medical and health sciences ,chemistry.chemical_compound ,Antibiotic resistance ,Pyrazinoic acid ,mode of action ,Mechanisms of Resistance ,Drug Resistance, Bacterial ,Tuberculosis, Multidrug-Resistant ,medicine ,clpC1 ,Humans ,Pharmacology (medical) ,antimicrobial resistance ,Phylogeny ,030304 developmental biology ,Sweden ,Pharmacology ,Genetics ,0303 health sciences ,low-level resistance ,biology ,030306 microbiology ,Isoniazid ,Pyrazinamide ,biology.organism_classification ,medicine.disease ,Multiple drug resistance ,Infectious Diseases ,chemistry ,Mutation ,PncA ,medicine.drug - Abstract
Pyrazinamide (PZA) is a widely used antitubercular chemotherapeutic. Typically, PZA resistance (PZA-R) emerges in Mycobacterium tuberculosis strains with existing resistance to isoniazid and rifampin (i.e., multidrug resistance [MDR]) and is conferred by loss-of-function pncA mutations that inhibit conversion to its active form, pyrazinoic acid (POA). PZA-R departing from this canonical scenario is poorly understood. Here, we genotyped pncA and purported alternative PZA-R genes (panD, rpsA, and clpC1) with long-read sequencing of 19 phenotypically PZA-monoresistant isolates collected in Sweden and compared their phylogenetic and genomic characteristics to a large set of MDR PZA-R (MDRPZA-R) isolates. We report the first association of ClpC1 mutations with PZA-R in clinical isolates, in the ClpC1 promoter (clpC1p−138) and the N terminus of ClpC1 (ClpC1Val63Ala). Mutations have emerged in both these regions under POA selection in vitro, and the N-terminal region of ClpC1 has been implicated further, through its POA-dependent efficacy in PanD proteolysis. ClpC1Val63Ala mutants spanned 4 Indo-Oceanic sublineages. Indo-Oceanic isolates invariably harbored ClpC1Val63Ala and were starkly overrepresented (odds ratio [OR] = 22.2, P < 0.00001) among PZA-monoresistant isolates (11/19) compared to MDRPZA-R isolates (5/80). The genetic basis of Indo-Oceanic isolates’ overrepresentation in PZA-monoresistant tuberculosis (TB) remains undetermined, but substantial circumstantial evidence suggests that ClpC1Val63Ala confers low-level PZA resistance. Our findings highlight ClpC1 as potentially clinically relevant for PZA-R and reinforce the importance of genetic background in the trajectory of resistance development.
- Published
- 2021