Molecular characterization of Mycobacterium tuberculosis isolated in the State of Parana in southern Brazil

Malaghini, Marcelo; Brockelt, Sonia Regina; Burger, Marion; Kritski, Afrânio Lineu; Soccol, Vanete Thomaz

doi:10.1016/j.tube.2008.07.005

Cited by 8 publications

(5 citation statements)

References 31 publications

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“…These methodologies allowed 85.7% differentiation of the M. tuberculosis isolates analyzed, which is in agreement with a recent study conducted in the city of Curitiba (the capital of PR) that found 93.5% differentiation using Mixed-linker PCR DNA fingerprinting (Malaghini et al 2009). Alternatively, an analysis of M. tuberculosis isolates from three regions of Rs found 66% clonal differentiation using Is6110-RFLP and spoligotyping , while isolates from two cities in Rs that were analyzed by Is6110-RFLP and spoligotyping revealed high clonal diversity of M. tuberculosis (Borsuk et al 2005).…”

Section: Discussionsupporting

confidence: 90%

“…Particularly, there are few studies of this nature in Brazil (Borsuk et al 2005, Oelemann et al 2007b, Malaspina et al 2008, Malaghini et al 2009). To explore the molecular epidemiology of TB in northwestern PR, we chose to work with two effective and fast methodologies: spoligotyping and MIRU-VNTR typing (Malaghini et al 2009). …”

Section: Discussionmentioning

confidence: 99%

“…Brazil has five distinct geographic regions, among which the distribution of TB cases varies greatly. In the state of Paraná (PR) in southern Brazil, the average rate of TB is 27.52 cases per 100,000 inhabitants (Malaghini et al 2009). Maringá and the small cities surrounding it form a low-endemic area of TB in PR, with an incidence rate of 22.62 cases per 100,000 in 2007 (personal communication).…”

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confidence: 99%

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Genotyping of Mycobacterium tuberculosis isolates from alow-endemic setting in northwestern state of Paraná in Southern Brazil

Noguti

Leite

Malaspina

et al. 2010

Mem. Inst. Oswaldo Cruz

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Section: Discussionsupporting

confidence: 90%

Section: Discussionmentioning

confidence: 99%

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confidence: 99%

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Genotyping of Mycobacterium tuberculosis isolates from alow-endemic setting in northwestern state of Paraná in Southern Brazil

Noguti

Leite

Malaspina

et al. 2010

Mem. Inst. Oswaldo Cruz

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“…Lineage 2, in the other hand, is typically absent from South America. There has also been previous local-scale studies examining MTBC diversity in Portugal (David et al, 2007) and Southern regions of Brazil [Rio Grande do Sul (Borsuk et al, 2005;Scholante Silva et al, 2009), Parana (Malaghini et al, 2009) and São Paulo (Mendes et al, 2011)]. …”

Section: Introductionmentioning

confidence: 98%

SNP typing reveals similarity in Mycobacterium tuberculosis genetic diversity between Portugal and Northeast Brazil

Lopes

Marques

Soares

et al. 2013

Infection, Genetics and Evolution

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Abstract:Human tuberculosis is an infectious disease caused by bacteria from the Mycobacterium tuberculosis complex (MTBC). Although Spoligotyping and MIRU-VNTR are standard methodology in MTBC genetic epidemiology, recent studies suggest that Single Nucleotide Polymorphisms (SNP) are advantageous in phylogenetics and strain identification. In this work we use a set of 79 SNPs to characterize 1915 MTBC isolates from Portugal and 141 from Northeast Brazil. All Brazilian samples and a subset of 111 Portuguese isolates were further characterized using Spolygotyping. Phylogenetic analysis against a reference set revealed that about 95% of the isolates in both populations were singly attributed to bacterial lineage 4. Within this lineage, the most frequent strain groups in both Portugal and Brazil were LAM, followed by Haarlem and then X. Contrarily to these groups, strain group T showed a very different prevalence between Portugal and Brazil, with a frequency of 7% and less than 1.5%, respectively. Taking the classification by SNPs as the most accurate, we analyze the performance of Spoligotyping in strain identification. The former marker shows about 12% of miss-matches and less than 1% of unidentifiable strains. The miss-matches are observed in the most represented groups of our sample set (i.e., LAM, Haarlem and T) in almost the same proportion. Besides being more accurate in strain identification, SNPs typing can also provide phylogenetic relationships between the strain groups. Indeed, using this molecular markers we were able to observe possible signs of rare recombination events in Mtb.Overall, the use of SNP typing revealed striking similarities between MTBC populations from Portugal and Brazil. In addition this marker suggest that, albeit rare, recombination events in MTBC are likely to occur.

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“…One strand of the linker molecule contained uracil instead of thymidine, and it was split by UDG assuring specificity of the reaction [17]. The mixed-linker method was successfully applied to outbreak investigations and population-based studies [17, 18, 23]. However, it requires reamplification that increases the risk of cross-contamination and multiple hands-on steps.…”

Section: Discussionmentioning

confidence: 99%

Genotyping of ClinicalMycobacterium tuberculosisIsolates Based on IS6110and MIRU-VNTR Polymorphisms

Żaczek

Brzostek

Wojtasik

et al. 2013

BioMed Research International

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In this study, 155 clinical Mycobacterium tuberculosis isolates were subject to genotyping with fast ligation-mediated PCR (FLiP). This typing method is a modified mixed-linker PCR, a rapid approach based on the PCR amplification of HhaI restriction fragments of genomic DNA containing the 3′ end of IS6110 and resolving the amplicons by polyacrylamide gel electrophoresis. The results were compared with previous data of the more commonly used methods, 15-locus mycobacterial interspersed repetitive unit-variable number tandem repeat (MIRU-VNTR) typing and, to verify combined FLiP/MIRU-VNTR clusters, the reference IS6110 restriction fragment length polymorphism (RFLP). FLiP banding patterns were highly reproducible and polymorphic. This method differentiated 119 types among the study set compared to 108 distinct MIRU-VNTR profiles. The discriminatory power of FLiP was slightly higher than that of MIRU-VNTR analysis (Hunter-Gaston Discriminatory Index = 0.991 and 0.990, resp.). Detailed comparison of the clusters defined by each of the methods revealed, however, a more apparent difference in the discriminatory abilities that favored FLiP. Clustering of strains by using combined results of these two PCR-based methods correlated well with IS6110 RFLP-defined clusters, further confirming high discriminatory potential of FLiP typing. These results indicate that FLiP could be an attractive and valuable secondary typing technique for verification of MIRU-VNTR clusters of M. tuberculosis strains.

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Molecular characterization of Mycobacterium tuberculosis isolated in the State of Parana in southern Brazil

Cited by 8 publications

References 31 publications

Genotyping of Mycobacterium tuberculosis isolates from alow-endemic setting in northwestern state of Paraná in Southern Brazil

Genotyping of Mycobacterium tuberculosis isolates from alow-endemic setting in northwestern state of Paraná in Southern Brazil

SNP typing reveals similarity in Mycobacterium tuberculosis genetic diversity between Portugal and Northeast Brazil

Genotyping of ClinicalMycobacterium tuberculosisIsolates Based on IS6110and MIRU-VNTR Polymorphisms

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