ArticlePLoS pathogens2020
Insertion and deletion evolution reflects antibiotics selection pressure in a Mycobacterium tuberculosis outbreak.
Article in PLoS pathogens, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers, 1 of them a synthesis that pooled it.
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Who cites it
24 citing papers in PubMed, 1 synthesis or guideline pooled it, 35 citations in OpenAlex.
- ClinicalFrontiers in microbiology · 2025Pooled it
- Variation in multiple classes of simple sequence repeats can alter drug susceptibility inbioRxiv : the preprint server for biology · 2026Article
- Molecular Tracing and Comparative Genomics Analysis ofPathogens (Basel, Switzerland) · 2025Article
- Article
- Genomic variations in Mycobacterium tuberculosis from the lungs and blood of HIV-infected individuals in Uganda: insights into compartmentalization.African health sciences · 2024Article
- Widespread loss-of-function mutations implicating preexisting resistance to new or repurposed anti-tuberculosis drugs.Drug resistance updates : reviews and commentaries in antimicrobial and anticancer chemotherapy · 2024Article
- Insertions and Deletions: Computational Methods, Evolutionary Dynamics, and Biological Applications.Molecular biology and evolution · 2024Review
- Mutational Dynamics Related to Antibiotic Resistance inMicroorganisms · 2024Article
- Ongoing evolution of the Mycobacterium tuberculosis lactate dehydrogenase reveals the pleiotropic effects of bacterial adaption to host pressure.PLoS pathogens · 2024Article
- SNPs in genes related to the repair of damage to DNA in clinical isolates of M. tuberculosis: A transversal and longitudinal approach.PloS one · 2024Article
- Large-scale Pan Genomic Analysis ofEvolutionary bioinformatics online · 2024Article
- Bradyrhizobium ottawaense efficiently reduces nitrous oxide through high nosZ gene expression.Scientific reports · 2023Article
- Insight into the drug-resistant characteristics and genetic diversity of multidrug-resistantMicrobiology spectrum · 2023Article
- Article
- Prolonged survival of a patient with active MDR-TB HIV co-morbidity: insights from aFrontiers in medicine · 2023Article
- Distinctive roles of translesion polymerases DinB1 and DnaE2 in diversification of the mycobacterial genome through substitution and frameshift mutagenesis.Nature communications · 2022Article
- Small Insertions and Deletions Drive Genomic Plasticity during Adaptive Evolution of Yersinia pestis.Microbiology spectrum · 2022Review
- Catwalk: identifying closely related sequences in large microbial sequence databases.Microbial genomics · 2022Article
- A critical evaluation ofMicrobial genomics · 2022Article
- Express Yourself: Quantitative Real-Time PCR Assays for Rapid Chromosomal Antimicrobial Resistance Detection in Pseudomonas aeruginosa.Antimicrobial agents and chemotherapy · 2022Article
Corrections and comments
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Authors and funding
8 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In genome evolution, genetic variants are the source of diversity, which natural selection acts upon. Treatment of human tuberculosis (TB) induces a strong selection pressure for the emergence of antibiotic resistance-conferring variants in the infecting Mycobacterium tuberculosis (MTB) strains. MTB evolution in response to treatment has been intensively studied and mainly attributed to point substitutions. However, the frequency and contribution of insertions and deletions (indels) to MTB genome evolution remains poorly understood. Here, we analyzed a multi-drug resistant MTB outbreak for the presence of high-quality indels and substitutions. We find that indels are significantly enriched in genes conferring antibiotic resistance. Furthermore, we show that indels are inherited during the outbreak and follow a molecular clock with an evolutionary rate of 5.37e-9 indels/site/year, which is 23 times lower than the substitution rate. Inherited indels may co-occur with substitutions in genes along related biological pathways; examples are iron storage and resistance to second-line antibiotics. This suggests that epistatic interactions between indels and substitutions affect antibiotic resistance and compensatory evolution in MTB.
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