Strain classification of Mycobacterium tuberculosis isolates in Brazil based on genotypes obtained by spoligotyping, mycobacterial interspersed repetitive unit typing and the presence of large sequence and single nucleotide polymorphism
| العنوان: | Strain classification of Mycobacterium tuberculosis isolates in Brazil based on genotypes obtained by spoligotyping, mycobacterial interspersed repetitive unit typing and the presence of large sequence and single nucleotide polymorphism |
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| المؤلفون: | Flávio Tannure, Lia Lima Gomes, Michel K. Gomgnimbou, Neio Boechat, Karla Valéria Batista Lima, Maria de Lourdes Leite, Emilyn Costa Conceição, Harrison Magdinier Gomes, Nalin Rastogi, Chyntia Carolina Diaz Acosta, Paulo Cesar de Souza Caldas, David Couvin, Philip Noel Suffys, Adalberto R. Santos, Marcelo Emanuel Ivens de Araujo, Christophe Sola, Sidra Ezidio Gonçalves Vasconcellos |
| المساهمون: | Molecular Biology Applied to Mycobacteria / Biologia Molecular Aplicada a Micobactérias [Rio de Janeiro], Instituto Oswaldo Cruz / Oswaldo Cruz Institute [Rio de Janeiro] (IOC), Fundação Oswaldo Cruz (FIOCRUZ), Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP)-Fundação Oswaldo Cruz (FIOCRUZ), Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP), Multidisciplinary Research Laboratory, University Hospital Clementino Fraga Filho, Federal University of Rio de Janeiro (HUCFF), Laboratory of Cellular Microbiology / Laboratório de Microbiologia Celular [Rio de Janeiro], Section of Bacteriology and Mycology, Instituto Evandro Chagas, Municipal Secretary of Health, Hospital Municipal Rafael de Paula Souza, Escola Nacional de Saude Publica Sergio Arouca / Sergio Arouca National School of Public Health [Rio de Janeiro] (ENSP), Institut de génétique et microbiologie [Orsay] (IGM), Université Paris-Sud - Paris 11 (UP11)-Centre National de la Recherche Scientifique (CNRS), Institut Pasteur de la Guadeloupe, Réseau International des Instituts Pasteur (RIIP), Graduate Program in Clinical Medicine, Faculty of Medicine, University Hospital Clementino Fraga Filho, This work was supported by funding by Brazilian funding agencies PAPES/CNPq (407624/2012-0), PROEP/CNPq of the Oswaldo Cruz Institute (IOC), andCNPq PhD grant (142958/2008-5). |
| المصدر: | PLoS ONE PLoS ONE, Public Library of Science, 2014, 9 (10), pp.e107747. ⟨10.1371/journal.pone.0107747⟩ PLoS ONE, Vol 9, Iss 10, p e107747 (2014) |
| سنة النشر: | 2014 |
| مصطلحات موضوعية: | Evolutionary Genetics, Bacterial Diseases, Minisatellite Repeats, Pathogenesis, Pathology and Laboratory Medicine, MIRU-VNTR, Gene Frequency, Genotype, Medicine and Health Sciences, Phylogeny, Genetics, Spoligotyping, 0303 health sciences, Multidisciplinary, Ecology, LSP, Microbial Mutation, 3. Good health, Bacterial Pathogens, Infectious Diseases, Medical Microbiology, Host-Pathogen Interactions, Medicine, Brazil, Research Article, Genotyping, Tuberculosis, Ecological Metrics, Science, SNP, Single-nucleotide polymorphism, Biology, Research and Analysis Methods, Polymorphism, Single Nucleotide, Microbiology, Mycobacterium tuberculosis, 03 medical and health sciences, Bacterial Proteins, medicine, Humans, Typing, Molecular Biology Techniques, Allele frequency, Microbial Pathogens, Molecular Biology, Alleles, 030304 developmental biology, Evolutionary Biology, Population Biology, 030306 microbiology, Ecology and Environmental Sciences, Mycobacterial Interspersed Repetitive Unit Typing, Biology and Life Sciences, Mycobacteria, medicine.disease, biology.organism_classification, bacterial infections and mycoses, Tropical Diseases, [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, Organismal Evolution, Emerging Infectious Diseases, Microbial Evolution, Genetic Polymorphism, [SDV.SPEE]Life Sciences [q-bio]/Santé publique et épidémiologie, RD, Population Genetics |
| الوصف: | International audience; Rio de Janeiro is endemic for tuberculosis (TB) and presents the second largest prevalence of the disease in Brazil. Here, we present the bacterial population structure of 218 isolates of Mycobacterium tuberculosis, derived from 186 patients that were diagnosed between January 2008 and December 2009. Genotypes were generated by means of spoligotyping, 24 MIRU-VNTR typing and presence of fbpC103, RDRio and RD174. The results confirmed earlier data that predominant genotypes in Rio de Janeiro are those of the Euro American Lineages (99%). However, we observed differences between the classification by spoligotyping when comparing to that of 24 MIRU-VNTR typing, being respectively 43.6% vs. 62.4% of LAM, 34.9% vs. 9.6% of T and 18.3% vs. 21.5% of Haarlem. Among isolates classified as LAM by MIRU typing, 28.0% did not present the characteristic spoligotype profile with absence of spacers 21 to 24 and 32 to 36 and we designated these conveniently as "LAM-like", 79.3% of these presenting the LAM-specific SNP fbpC103. The frequency of RDRio and RD174 in the LAM strains, as defined both by spoligotyping and 24 MIRU-VNTR loci, were respectively 11% and 15.4%, demonstrating that RD174 is not always a marker for LAM/RDRio strains. We conclude that, although spoligotyping alone is a tool for classification of strains of the Euro-American lineage, when combined with MIRU-VNTRs, SNPs and RD typing, it leads to a much better understanding of the bacterial population structure and phylogenetic relationships among strains of M. tuberculosis in regions with high incidence of TB. |
| تدمد: | 1932-6203 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::98153e19f116498abbf30eb77443435c https://pubmed.ncbi.nlm.nih.gov/25314118 |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.doi.dedup.....98153e19f116498abbf30eb77443435c |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 19326203 |
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