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Molecular drug susceptibility testing and strain typing of tuberculosis by DNA hybridization
- Source :
- PLoS ONE, PLoS ONE, Vol 14, Iss 2, p e0212064 (2019)
- Publication Year :
- 2019
- Publisher :
- Public Library of Science, 2019.
-
Abstract
- In Mycobacterium tuberculosis (Mtb) the detection of single nucleotide polymorphisms (SNPs) is of high importance both for diagnostics, since drug resistance is primarily caused by the acquisition of SNPs in multiple drug targets, and for epidemiological studies in which strain typing is performed by SNP identification. To provide the necessary coverage of clinically relevant resistance profiles and strain types, nucleic acid-based measurement techniques must be able to detect a large number of potential SNPs. Since the Mtb problem is pressing in many resource-poor countries, requiring low-cost point-of-care biosensors, this is a non-trivial technological challenge. This paper presents a proof-of-concept in which we chose simple DNA-DNA hybridization as a sensing principle since this can be transferred to existing low-cost hardware platforms, and we pushed the multiplex boundaries of it. With a custom designed probe set and a physicochemical-driven data analysis it was possible to simultaneously detect the presence of SNPs associated with first- and second-line drug resistance and Mtb strain typing. We have demonstrated its use for the identification of drug resistance and strain type from a panel of phylogenetically diverse clinical strains. Furthermore, reliable detection of the presence of a minority population (
- Subjects :
- 0301 basic medicine
Bacterial Diseases
Microarrays
Extensively Drug-Resistant Tuberculosis
Gene Identification and Analysis
Antitubercular Agents
Artificial Gene Amplification and Extension
Drug resistance
Polymerase Chain Reaction
law.invention
FLUOROQUINOLONE
law
Medicine and Health Sciences
Multiplex
Polymerase chain reaction
education.field_of_study
Multidisciplinary
biology
Hybridization probe
Nucleic Acid Hybridization
Multidisciplinary Sciences
Actinobacteria
Infectious Diseases
Bioassays and Physiological Analysis
Science & Technology - Other Topics
Medicine
MYCOBACTERIUM-TUBERCULOSIS
DNA microarray
HETERORESISTANCE
Research Article
DNA, Bacterial
Science
030106 microbiology
Population
Molecular Probe Techniques
Computational biology
Microbial Sensitivity Tests
DIAGNOSIS
Research and Analysis Methods
Microbiology
Polymorphism, Single Nucleotide
Mycobacterium tuberculosis
Molecular Genetics
03 medical and health sciences
Microbial Control
Multiplex polymerase chain reaction
Genetics
Tuberculosis
Humans
education
Molecular Biology Techniques
RIFAMPIN RESISTANCE
Mutation Detection
Molecular Biology
Pharmacology
Science & Technology
Bacteria
Organisms
RAPID DETECTION
Biology and Life Sciences
biology.organism_classification
Tropical Diseases
EVOLUTION
Probe Hybridization
030104 developmental biology
Antimicrobial Resistance
Multiplex Polymerase Chain Reaction
Subjects
Details
- Language :
- English
- ISSN :
- 19326203
- Volume :
- 14
- Issue :
- 2
- Database :
- OpenAIRE
- Journal :
- PLoS ONE
- Accession number :
- edsair.doi.dedup.....b897fb424c2f8987db1220f9caf800cc