ArticleBMC genomics2014
Comparative genomic analysis of Mycobacterium tuberculosis clinical isolates.
Article in BMC genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
- Diversification of gene content in theMicrobiology spectrum · 2024Article
- The rate and role of pseudogenes of theMicrobial genomics · 2022Article
- A Low-Prevalence Single-Nucleotide Polymorphism in the Sensor Kinase PhoR inFrontiers in microbiology · 2021Article
- Genetic assessment of the internal transcribed spacer region (ITS1.2) inPhysiology and molecular biology of plants : an international journal of functional plant biology · 2020Article
- Retrospective Analysis of Archived Pyrazinamide ResistantMicroorganisms · 2019Article
- Alternate splicing of transcripts upon Mycobacterium tuberculosis infection impacts the expression of functional protein domains.IUBMB life · 2018Article
- Purifying Selective Pressure Suggests the Functionality of a Vitamin B12 Biosynthesis Pathway in a Global Population of Mycobacterium tuberculosis.Genome biology and evolution · 2018Article
- In vivo evolution of drug-resistant Mycobacterium tuberculosis in patients during long-term treatment.BMC genomics · 2018Article
- Comparative genomic analysis of multidrug-resistantInfection and drug resistance · 2018Article
- Fitness-compensatory mutations facilitate the spread of drug-resistant F15/LAM4/KZN and F28 Mycobacterium tuberculosis strains in KwaZulu-Natal, South Africa.Journal of genetics · 2017Article
- Linezolid Dose That Maximizes Sterilizing Effect While Minimizing Toxicity and Resistance Emergence for Tuberculosis.Antimicrobial agents and chemotherapy · 2017Article
- Multidrug-Resistant Bacterial Isolates Recovered from Herbal Medicinal Products Sold in Nairobi, Kenya.The East African health research journal · 2017Article
- Complete Genome Sequencing ofFrontiers in microbiology · 2017Article
- Dynamics of Mycobacteriophage-Mycobacterial Host Interaction: Evidence for Secondary Mechanisms for Host Lethality.Applied and environmental microbiology · 2016Article
- Whole genome sequencing reveals genomic heterogeneity and antibiotic purification in Mycobacterium tuberculosis isolates.BMC genomics · 2015Article
- Whole genome sequence analysis of multidrug-resistant Mycobacterium tuberculosis Beijing isolates from an outbreak in Thailand.Molecular genetics and genomics : MGG · 2015Article
- Draft genomes of four enterotoxigenic Escherichia coli (ETEC) clinical isolates from China and Bangladesh.Gut pathogens · 2015Article
- Comparative whole-genome analysis of clinical isolates reveals characteristic architecture of Mycobacterium tuberculosis pangenome.PloS one · 2015Article
- Evaluation of resistance acquisition during tuberculosis treatment using whole genome sequencing.The Brazilian journal of infectious diseases : an official publication of the Brazilian Society of Infectious DiseasesArticle
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7 authors.
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Abstract
backgroundDue to excessive antibiotic use, drug-resistant Mycobacterium tuberculosis has become a serious public health threat and a major obstacle to disease control in many countries. To better understand the evolution of drug-resistant M. tuberculosis strains, we performed whole genome sequencing for 7 M. tuberculosis clinical isolates with different antibiotic resistance profiles and conducted comparative genomic analysis of gene variations among them.
resultsWe observed that all 7 M. tuberculosis clinical isolates with different levels of drug resistance harbored similar numbers of SNPs, ranging from 1409-1464. The numbers of insertion/deletions (Indels) identified in the 7 isolates were also similar, ranging from 56 to 101. A total of 39 types of mutations were identified in drug resistance-associated loci, including 14 previously reported ones and 25 newly identified ones. Sixteen of the identified large Indels spanned PE-PPE-PGRS genes, which represents a major source of antigenic variability. Aside from SNPs and Indels, a CRISPR locus with varied spacers was observed in all 7 clinical isolates, suggesting that they might play an important role in plasticity of the M. tuberculosis genome. The nucleotide diversity (Л value) and selection intensity (dN/dS value) of the whole genome sequences of the 7 isolates were similar. The dN/dS values were less than 1 for all 7 isolates (range from 0.608885 to 0.637365), supporting the notion that M. tuberculosis genomes undergo purifying selection. The Л values and dN/dS values were comparable between drug-susceptible and drug-resistant strains.
conclusionsIn this study, we show that clinical M. tuberculosis isolates exhibit distinct variations in terms of the distribution of SNP, Indels, CRISPR-cas locus, as well as the nucleotide diversity and selection intensity, but there are no generalizable differences between drug-susceptible and drug-resistant isolates on the genomic scale. Our study provides evidence strengthening the notion that the evolution of drug resistance among clinical M. tuberculosis isolates is clearly a complex and diversified process.
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