Subcultured Mycobacterium tuberculosis isolates on different growth media are fully representative of bacteria within clinical samples

Mycobacterium tuberculosis (Mtb) whole genome sequencing (WGS) plays an increasingly important role in tuberculosis diagnosis and research. WGS is typically performed on biobanked isolates obtained by subculture during diagnosis. Genetic variation upon culturing is known to occur in other bacterial...

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Bibliographic Details
Published in:Tuberculosis (Edinburgh, Scotland) Scotland), 2019-05, Vol.116, p.61-66
Main Authors: Genestet, Charlotte, Hodille, Elisabeth, Westeel, Emilie, Ginevra, Christophe, Ader, Florence, Venner, Samuel, Lina, Gérard, Bryant, Juliet E., Berland, Jean-Luc, Dumitrescu, Oana
Format: Article
Language:English
Subjects:
Bacteriological Techniques
Culture media
Diagnosis
DNA, Bacterial - genetics
DNA, Bacterial - isolation & purification
Epidemiology
Gene sequencing
Genetic diversity
Genome-wide diversity
Genomes
Growth media
Humans
Mycobacterium tuberculosis
Mycobacterium tuberculosis - genetics
Mycobacterium tuberculosis - growth & development
Mycobacterium tuberculosis - isolation & purification
Nucleotides
Pathogenesis
Polymorphism, Single Nucleotide
Predictive Value of Tests
Reproducibility of Results
Single-nucleotide polymorphism
Sputum - microbiology
Subculture
Tuberculosis
Tuberculosis, Pulmonary - diagnosis
Tuberculosis, Pulmonary - microbiology
Virulence determinants
Whole Genome Sequencing
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Summary:Mycobacterium tuberculosis (Mtb) whole genome sequencing (WGS) plays an increasingly important role in tuberculosis diagnosis and research. WGS is typically performed on biobanked isolates obtained by subculture during diagnosis. Genetic variation upon culturing is known to occur in other bacterial species. However, little is understood regarding the impact of different subculture media on genome-wide diversity and variant selection in Mtb. Here we compared WGS derived from direct sequencing of sputa samples to WGS sequences from isolates subcultured on 3 different media. Based on analysis of single nucleotide polymorphisms (SNPs), there was no evidence of variant selection caused by the different culture media used, indicating that subcultured clinical strains can be reliably used to explore genetic determinants of Mtb pathogenesis and epidemiological features.
ISSN:1472-9792
1873-281X
DOI:10.1016/j.tube.2019.05.001