Sequencing of
            <i>hsp65</i>
            Gene for Identification of
            <i>Mycobacterium</i>
            Species Isolated from Environmental and Clinical Sources in Rio de Janeiro, Brazil

Senna, Simone Gonçalves; Battilana, Jaqueline; Costa, Juliana C.; Silva, Marlei G.; Duarte, Rafael Silva; Fonseca, Leila S.; Suffys, Philip Noël; Bogo, Maurı́cio Reis

doi:10.1128/jcm.00451-08

Cited by 11 publications

(7 citation statements)

References 14 publications

(10 reference statements)

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“…Our results are different from studies that have found correlations between C. gattii molecular types in the environmental and clinical populations . A result similar to C. gattii was found for bacterial pathogens in the genus Mycobacterium in Brazil where the prevalence of species in this genus from environmental and clinical populations was correlated with each other . As our environmental yeast isolates were found to show a large degree of spatial and temporal variations, multiple environmental factors were likely contributing to the variations, including insects, birds and mammals .…”

Section: Discussioncontrasting

confidence: 99%

“…21,22,39 A result similar to C. gattii was found for bacterial pathogens in the genus Mycobacterium in Brazil where the prevalence of species in this genus from environmental and clinical populations was correlated with each other. 40 As our environmental yeast isolates were found to show a large degree of spatial and temporal variations, multiple environmental factors were likely contributing to the variations, including insects, birds and mammals. 41,42 These animals could be both reservoirs and agents of dispersals for environmental yeast.…”

Section: Discussionmentioning

confidence: 92%

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Clinical and tree hollow populations of human pathogenic yeast in Hamilton, Ontario, Canada are different

Carvalho

Yang

Vogan

et al. 2013

Mycoses

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Yeast are among the most frequent pathogens in humans. The dominant yeast causing human infections belong to the genus Candida and Candida albicans is the most frequently isolated species. However, several non-C. albicans species are becoming increasingly common in patients worldwide. The relationships between yeast in humans and the natural environments remain poorly understood. Furthermore, it is often difficult to identify or exclude the origins of disease-causing yeast from specific environmental reservoirs. In this study, we compared the yeast isolates from tree hollows and from clinics in Hamilton, Ontario, Canada. Our surveys and analyses showed significant differences in yeast species composition, in their temporal dynamics, and in yeast genotypes between isolates from tree hollows and hospitals. Our results are inconsistent with the hypothesis that yeast from trees constitute a significant source of pathogenic yeast in humans in this region. Similarly, the yeast in humans and clinics do not appear to contribute to yeast in tree hollows.

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Section: Discussioncontrasting

confidence: 99%

Section: Discussionmentioning

confidence: 92%

Clinical and tree hollow populations of human pathogenic yeast in Hamilton, Ontario, Canada are different

Carvalho

Yang

Vogan

et al. 2013

Mycoses

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“…All of these mycobacteria belong to MAC group of organisms except M. bohemicum and M. seoulense , which are closer to M. scrofulaceum and M. kansassi [11] . To further discriminate MIP from rest of the species, two widely used molecular chronometers namely, rpoB and hsp65 were also evaluated [20] , [21] . It has been reported that a sequence similarity of complete rpoB gene <97.7% correlates with an ANI (average nucleotide identity between two organisms) value of <94.3% and DDH (DNA: DNA Hybridization) value of <70%, which are the taxonomic benchmarks to assign species status with respect to intraspecies comparisons [22] .…”

Section: Resultsmentioning

confidence: 99%

Polyphasic Taxonomic Analysis Establishes Mycobacterium indicus pranii as a Distinct Species

Saini

Raghuvanshi

Talwar³

et al. 2009

PLoS ONE

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Background Mycobacterium indicus pranii (MIP), popularly known as Mw, is a cultivable, non-pathogenic organism, which, based on its growth and metabolic properties, is classified in Runyon Group IV along with M. fortuitum, M. smegmatis and M. vaccae. The novelty of this bacterium was accredited to its immunological ability to undergo antigen driven blast transformation of leukocytes and delayed hypersensitivity skin test in leprosy patients, a disease endemic in the Indian sub-continent. Consequently, MIP has been extensively evaluated for its biochemical and immunological properties leading to its usage as an immunomodulator in leprosy and tuberculosis patients. However, owing to advances in sequencing and culture techniques, the citing of new strains with almost 100% similarity in the sequences of marker genes like 16S rRNA, has compromised the identity of MIP as a novel species. Hence, to define its precise taxonomic position, we have carried out polyphasic taxonomic studies on MIP that integrate its phenotypic, chemotaxonomic and molecular phylogenetic attributes.Methodology/Principal FindingsThe comparative analysis of 16S rRNA sequence of MIP by using BLAST algorithm at NCBI (nr database) revealed a similarity of ≥99% with M. intracellulare, M. arosiense, M. chimaera, M. seoulense, M. avium subsp. hominissuis, M. avium subsp. paratuberculosis and M. bohemicum. Further analysis with other widely used markers like rpoB and hsp65 could resolve the phylogenetic relationship between MIP and other closely related mycobacteria apart from M. intracellulare and M. chimaera, which shares ≥99% similarity with corresponding MIP orthologues. Molecular phylogenetic analysis, based on the concatenation of candidate orthologues of 16S rRNA, hsp65 and rpoB, also substantiated its distinctiveness from all the related organisms used in the analysis excluding M. intracellulare and M. chimaera with which it exhibited a close proximity. This necessitated further analysis of MIP with more sensitive and segregating parameters to ascertain its precise taxonomic position as a new species. The analysis of MIP and its comparison with other mycobacterial reference strains based on cellular and biochemical features, growth characteristics and chemotaxonomic studies like FAME profiling confirmed that MIP is uniquely endowed with diverse metabolic attributes that effectively distinguishes it from all the closely related mycobacteria including M. intracellulare and M. chimaera.ConclusionThe results presented in this study coupled with the non-pathogenic nature and different biochemical and immunomodulatory properties of MIP affirm it as a distinct species belonging to M. avium complex (MAC). It is further proposed to use an earlier suggested name Mycobacterium indicus pranii for this newly established mycobacterial species. This study also exemplifies the growing need for a uniform, consensus based broader polyphasic frame work for the purpose of taxonomy and speciation, particularly in the genus Mycobacterium.

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“…It is well known that NTM are ubiquitous environmental microorganisms that can be found in a variety of ecosystems [34]. In the selected 8 provinces, most of isolates were collected in Fujian and Hunan province.…”

Section: Discussionmentioning

confidence: 99%

Identification of Species of Nontuberculous Mycobacteria Clinical Isolates from 8 Provinces of China

Liu

Lian

Jiang

et al. 2016

BioMed Research International

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Pulmonary diseases caused by nontuberculous mycobacteria (NTM) are increasing in incidence and prevalence worldwide. In this study, we identified NTM species of the clinical isolates from 8 provinces in China, in order to preliminarily provide some basic scientific data in the different species and distribution of NTM related to pulmonary disease in China. A total of 523 clinical isolates from patients with tuberculosis (TB) diagnosed clinically from 2005 to 2012 were identified to the species using conventional and molecular methods, including multilocus PCR, rpoB and hsp65 PCR-PRA, hsp65, rpoB, and 16S-23S internal transcribed spacer region sequencing. The isolates were identified into 3 bacterium genera, including NTM, Gordonia bronchialis, and Nocardia farcinica, and, for the 488 NTM isolates, 27 species were identified. For all the 27 species of NTM which were found to cause pulmonary infections in humans, the most prevalent species was M. intracellulare, followed by M. avium and M. abscessus. And seven other species were for the first time identified in patients with TB in China. NTM species identification is very important for distinguishing between tuberculosis and NTM pulmonary diseases, and the species diversity drives the creation of diverse and integrated identification methods with higher accuracy and efficacy.

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Sequencing of hsp65 Gene for Identification of Mycobacterium Species Isolated from Environmental and Clinical Sources in Rio de Janeiro, Brazil

Cited by 11 publications

References 14 publications

Clinical and tree hollow populations of human pathogenic yeast in Hamilton, Ontario, Canada are different

Clinical and tree hollow populations of human pathogenic yeast in Hamilton, Ontario, Canada are different

Polyphasic Taxonomic Analysis Establishes Mycobacterium indicus pranii as a Distinct Species

Identification of Species of Nontuberculous Mycobacteria Clinical Isolates from 8 Provinces of China

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