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Microbead-based spoligotyping of Mycobacterium tuberculosis from Ziehl-Neelsen-stained microscopy preparations in Ethiopia

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Molina-Moya, Barbara, Agonafir, Mulualem, Blanco, Silvia, Dacombe, Russell ORCID: https://orcid.org/0000-0002-6705-1537, Gomgnimbou, Michel K., Spinasse, Lizania, Gomes-Fernandes, Meissiner, Datiko, Daniel, Edwards, Thomas, Cuevas, Luis ORCID: https://orcid.org/0000-0002-6581-0587, Dominguez, Jose and Sola, Christophe (2018) 'Microbead-based spoligotyping of Mycobacterium tuberculosis from Ziehl-Neelsen-stained microscopy preparations in Ethiopia'. Scientific Reports, Vol 8, Issue 1.

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Abstract

The worldwide dissemination of Mycobacterium tuberculosis strains has led to the study of their genetic diversity. One of the most used genotyping methods is spoligotyping, based on the detection of spacers in the clustered regularly interspaced short palindromic repeats (CRISPR) locus. This study assessed the performance of a microbead-based spoligotyping assay using samples extracted from Ziehl-Neelsen-stained smear-microscopy preparations and described the genetic diversity of Mycobacterium tuberculosis among new TB patients in Southern Nations, Nationalities and Peoples’ Region (SNNPR) in Ethiopia. Among the 91 samples analysed, 59 (64.8%) generated spoligotyping patterns. Fifty (84.7%) samples were classified into 12 clusters (mostly Lineage 4 or 3) comprising 2–11 samples and nine had unique spoligotyping patterns. Among the 59 spoligotyping patterns, 25 belonged to the T1 sublineage, 11 to the T3-ETH, 5 to the URAL, 4 to the H3 and 14 to other L4 sublineages. There was a remarkable variation in genetic distribution in SNNPR compared to other regions of the country. Microbead-based spoligotyping is an easy-to-perform, high-throughput assay that can generate genotyping information using material obtained from smear microscopy preparations. The method provides an opportunity to obtain data of the M. tuberculosis genetic epidemiology in settings with limited laboratory resources.

Item Type: Article
Subjects: QU Biochemistry > QU 4 General works
QV Pharmacology > Anti-Inflammatory Agents. Anti-Infective Agents. Antineoplastic Agents > QV 268 Antitubercular agents. Antitubercular antibiotics
QW Microbiology and Immunology > Bacteria > QW 125 Actinibacteria, Actinomycetales.
W General Medicine. Health Professions > W 20.5 Biomedical research
Faculty: Department: Biological Sciences > Department of Tropical Disease Biology
Digital Object Identifer (DOI): https://doi.org/10.1038/s41598-018-22071-9
SWORD Depositor: JISC Pubrouter
Depositing User: Stacy Murtagh
Date Deposited: 07 Mar 2018 15:48
Last Modified: 07 Mar 2018 15:48
URI: http://archive.lstmed.ac.uk/id/eprint/8311

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