Molecular Evidence of Lateral Gene Transfer in rpoB Gene of Mycobacterium yongonense Strains via Multilocus Sequence Analysis

Kim, Byoung Jun; Hong, Seok Hyun; Kook, Yoon Hoh; Kim, Bum Joon

doi:10.1371/journal.pone.0051846

Cited by 21 publications

(25 citation statements)

References 24 publications

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“…These isolates exhibited more similarity to M. parafortuitum than to M. komossense on the basis of the region III of rpoB gene sequence. Kim and colleagues (2013) reported the horizontal transfer of the rpoB gene from M. parascrofulaceum to Mycobacterium yongonense [51]. A horizontal gene transfer event may have occurred in the isolates of this study, and it is a hypothesis that would explain our results.…”

Section: Discussionsupporting

confidence: 54%

Diversity of Mycobacteriaceae from aquatic environment at the São Paulo Zoological Park Foundation in Brazil

et al. 2020

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We investigated the species diversity of Mycobacteriaceae in surface water samples from six environments at the zoological park in São Paulo, Brazil. Three hundred and eighty isolates were cultivated and identified by phenotypic characteristics (growth rate and pigmentation) and sequencing of hsp65, rpoB and 16S rRNA genes. The results revealed that almost 48% of the isolates could be identified at the species level; about 50% were classified at the genus level, and only less than 2% of the isolates showed an inconclusive identification. The isolates classified at the genus level and not identified were then evaluated by phylogenetic analyses using the same three concatenated target genes. The results allowed us to identify at the genus level some isolates that previously had inconclusive identification, and they also suggested the presence of putative candidate species within the sample, demonstrating that this zoological park is an important source of diversity.

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Section: Discussionsupporting

confidence: 54%

Diversity of Mycobacteriaceae from aquatic environment at the São Paulo Zoological Park Foundation in Brazil

et al. 2020

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“…US lineages of M. avium also grouped with reference isolates from non-CF patients, environmental samples from Europe 27,28 , and zoonotic isolates from Belgium 37 59 and lateral gene transfer of loci e.g. rpoB; 60 , which may explain the unexpected phylogenetic placement of M. yongonense 05-1390 T among our M. chimaera genomes. Further examination of MAC isolates, with specific attention to the relationships between M. chimaera, M. intracellulare and M. yongonense, will clarify the taxonomy of these species and allow us to better assess their prevalence within patients.…”

Section: Discussionmentioning

confidence: 79%

Population Genomics of Nontuberculous Mycobacteria Recovered from United States Cystic Fibrosis Patients

Epperson

et al. 2019

Preprint

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Nontuberculous mycobacteria (NTM) pose a threat to individuals with cystic fibrosis (CF) due to an increased prevalence of pulmonary infections, innate drug resistance of the bacteria, and potential transmission between CF patients. To explore the genetic diversity of NTM isolated from CF patients within the United States (US) and to identify potential transmission events, we sequenced and analyzed the genomes of 341 NTM isolates from 191 CF patients as part of a nationwide surveillance study. The most abundant species in the isolate cohort were Mycobacterium abscessus (59.5%), followed by species in the Mycobacterium avium complex (37.5%). Phylogenomic analyses of the three M. abscessus subspecies revealed that more than half of CF patients had isolates in one of four dominant clones, including two dominant clones of M. abscessus subspecies abscessus and two dominant clones of M. abscessus subspecies massiliense. M. avium isolates from US CF patients, however, do not have dominant clones and are phylogenetically diverse. Longitudinal NTM isolates were compared to determine genome-wide single nucleotide polymorphisms (SNPs) that occur within patients over time. This information was used to compare between and within-patient SNP distributions, to quantitatively define SNP thresholds suggestive of transmission, and calculate a posterior probability of recent transmission given the SNP distance between two isolates from different patients. Out of 114 patients with M. abscessus subspecies, ten clusters of highly similar isolates from 26 patients were identified. Among the 26 patients in the M. abscessus clusters, 12 attended the same CF care centers. No highly similar isolate clusters were observed in M. avium. Our study reveals the contrasting genomic diversity and epidemiology of two major NTM taxa and the potential for between-patient exposure and cross-transmission of these emerging pathogens.

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“…Interestingly, the rpoB gene sequence is closely related to that of M. parascrofulaceum and is distant from those of the MAC species. To explain such a finding, a lateral gene transfer event has been hypothesized (159). In contrast, a clearly different rpoB sequence that is fully compatible with belonging to the MAC was detected in two strains isolated in Italy.…”

Section: Mycobacterium Yongonensementioning

confidence: 99%

Microbiological Features and Clinical Relevance of New Species of the Genus Mycobacterium

2014

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SUMMARY Nontuberculous mycobacteria (NTM) are present in the environment, mainly in water, and are occasionally responsible for opportunistic infections in humans. Despite the fact that NTM are characterized by a moderate pathogenicity, the diseases caused by NTM at various body sites are increasing on a worldwide level. Among over 150 officially recognized NTM species, only two or three dozen are familiar to clinicians, and even to most microbiologists. In this paper, approximately 50 new species described in the last 8 years are reviewed, and their role in human infections is assessed on the basis of reported clinical cases. The small number of reports concerning most of the “new” mycobacterial species is responsible for the widespread conviction that they are very rare. Their role is actually largely underestimated, mainly because they often remain unrecognized and misidentified. Aiming to minimize such bias, emphasis has been placed on more common identification pitfalls. Together with new NTM, new members of the Mycobacterium tuberculosis complex described in the last few years are also an object of the present review.

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Molecular Evidence of Lateral Gene Transfer in rpoB Gene of Mycobacterium yongonense Strains via Multilocus Sequence Analysis

Cited by 21 publications

References 24 publications

Diversity of Mycobacteriaceae from aquatic environment at the São Paulo Zoological Park Foundation in Brazil

Diversity of Mycobacteriaceae from aquatic environment at the São Paulo Zoological Park Foundation in Brazil

Population Genomics of Nontuberculous Mycobacteria Recovered from United States Cystic Fibrosis Patients

Microbiological Features and Clinical Relevance of New Species of the Genus Mycobacterium

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