In silico analysis of mycobacteriophage Che12 genome: Characterization of genes required to lysogenise Mycobacterium tuberculosis

Gomathi, N S; Sameer, H.; Kumar, Vanaja; Balaji, S.; Dustackeer, V.N. Azger; Narayanan, P. R.

doi:10.1016/j.compbiolchem.2007.02.007

Cited by 8 publications

(6 citation statements)

References 29 publications

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“…It is the only protein that shows sequence similarity with most of the mycobacteriophages sequenced so far, suggesting that it is highly conserved among them. The terminase gene, transporting DNA into the proheads prior to attachment of the tail (54)(55)(56), is located close to the structural gene operon and far from the physical end of the genome, more than 20 kbp. This is also observed in the genomes of cluster A myobacteriophages (13,30,(56)(57)(58).…”

Section: Discussionmentioning

confidence: 99%

The First Structure of a Mycobacteriophage, the Mycobacterium abscessus subsp. bolletii Phage Araucaria

Sassi

Bebeacua

Drancourt

et al. 2013

J Virol

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The unique characteristics of the waxy mycobacterial cell wall raise questions about specific structural features of their bacteriophages. No structure of any mycobacteriophage is available, although ϳ3,500 have been described to date. To fill this gap, we embarked in a genomic and structural study of a bacteriophage from Mycobacterium abscessus subsp. bolletii, a member of the Mycobacterium abscessus group. This opportunistic pathogen is responsible for respiratory tract infections in patients with lung disorders, particularly cystic fibrosis. M. abscessus subsp. bolletii was isolated from respiratory tract specimens, and bacteriophages were observed in the cultures. We report here the genome annotation and characterization of the M. abscessus subsp. bolletii prophage Araucaria, as well as the first single-particle electron microscopy reconstruction of the whole virion. Araucaria belongs to Siphoviridae and possesses a 64-kb genome containing 89 open reading frames (ORFs), among which 27 could be annotated with certainty. Although its capsid and connector share close similarity with those of several phages from Gram-negative (Gram ؊ ) or Gram ؉ bacteria, its most distinctive characteristic is the helical tail decorated by radial spikes, possibly host adhesion devices, according to which the phage name was chosen. Its host adsorption device, at the tail tip, assembles features observed in phages binding to protein receptors, such as phage SPP1. All together, these results suggest that Araucaria may infect its mycobacterial host using a mechanism involving adhesion to cell wall saccharides and protein, a feature that remains to be further explored.

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Section: Discussionmentioning

confidence: 99%

The First Structure of a Mycobacteriophage, the Mycobacterium abscessus subsp. bolletii Phage Araucaria

Sassi

Bebeacua

Drancourt

et al. 2013

J Virol

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“…We also note that the terminase large subunit gene is separated from the physical end of the genome by more than 10.5 kbp. This is atypical but not unprecedented and is also seen in the cluster A phage genomes (14,17,23). However, in those examples, the lysis cassette also lies within this region, whereas in Marvin it is to the right of the structural operon (Fig.…”

Section: Resultsmentioning

confidence: 99%

Mycobacteriophage Marvin: a New Singleton Phage with an Unusual Genome Organization

Mageeney

Pope

Harrison

et al. 2012

J Virol

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bMycobacteriophages represent a genetically diverse group of viruses that infect mycobacterial hosts. Although more than 80 genomes have been sequenced, these still poorly represent the likely diversity of the broader population of phages that can infect the host, Mycobacterium smegmatis mc 2 155. We describe here a newly discovered phage, Marvin, which is a singleton phage, having no previously identified close relatives. The 65,100-bp genome contains 107 predicted protein-coding genes arranged in a noncanonical genomic architecture in which a subset of the minor tail protein genes are displaced about 20 kbp from their typical location, situated among nonstructural genes anticipated to be expressed early in lytic growth. Marvin is not temperate, and stable lysogens cannot be recovered from infections, although the presence of a putative xis gene suggests that Marvin could be a relatively recent derivative of a temperate parent. The Marvin genome is replete with novel genes not present in other mycobacteriophage genomes, and although most are of unknown function, the presence of amidoligase and glutamine amidotransferase genes suggests intriguing possibilities for the interactions of Marvin with its mycobacterial hosts.

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“…Additionally, phylogenic analysis depicted that SWU1 and L5 genomes underwent insertion and deletions that imposed dissimilarities on their genome structures. Che12 is a temperate mycobacteriophage that can infect and lysogenize M. tuberculosis [ 81 ]. The temperate profile of this phage was discovered via superinfection immunity analysis, and the integration of the phage into M. tuberculosis was guaranteed by a southern hybridization experiment using Che12 DNA as a probe.…”

Section: An Explanation Of Discovered Mycobacteriophages Infective To...mentioning

confidence: 99%

“…Che12 has a genome similarity above 80% with L5 and D29, in which phylogenic studies suggested that Che12 might be derived from L5. Interestingly, the Che12 attachment site attP has homology to attB in M. smegmatis and M. tuberculosis, and this capability could be exploited in the phage-based diagnosis of M. tuberculosis [ 81 ]. In 2009, a recombinant Che12, phAETRC16, was engineered to carry a luciferase cassette infecting viable M. tuberculosis and visualize the presence of the bacterium in specimens via emission of luciferase light in which the emitted light was measurable by a luminometer [ 82 ].…”

Section: An Explanation Of Discovered Mycobacteriophages Infective To...mentioning

confidence: 99%

A Review on Mycobacteriophages: From Classification to Applications

Hosseiniporgham

Sechi

2022

Pathogens

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Mycobacterial infections are a group of life-threatening conditions triggered by fast- or slow-growing mycobacteria. Some mycobacteria, such as Mycobacterium tuberculosis, promote the deaths of millions of lives throughout the world annually. The control of mycobacterial infections is influenced by the challenges faced in the diagnosis of these bacteria and the capability of these pathogens to develop resistance against common antibiotics. Detection of mycobacterial infections is always demanding due to the intracellular nature of these pathogens that, along with the lipid-enriched structure of the cell wall, complicates the access to the internal contents of mycobacterial cells. Moreover, recent studies depicted that more than 20% of M. tuberculosis (Mtb) infections are multi-drug resistant (MDR), and only 50% of positive MDR-Mtb cases are responsive to standard treatments. Similarly, the susceptibility of nontuberculosis mycobacteria (NTM) to first-line tuberculosis antibiotics has also declined in recent years. Exploiting mycobacteriophages as viruses that infect mycobacteria has significantly accelerated the diagnosis and treatment of mycobacterial infections. This is because mycobacteriophages, regardless of their cycle type (temperate/lytic), can tackle barriers in the mycobacterial cell wall and make the infected bacteria replicate phage DNA along with their DNA. Although the infectivity of the majority of discovered mycobacteriophages has been evaluated in non-pathogenic M. smegmatis, more research is still ongoing to find mycobacteriophages specific to pathogenic mycobacteria, such as phage DS6A, which has been shown to be able to infect members of the M. tuberculosis complex. Accordingly, this review aimed to introduce some potential mycobacteriophages in the research, specifically those that are infective to the three troublesome mycobacteria, M. tuberculosis, M. avium subsp. paratuberculosis (MAP), and M. abscessus, highlighting their theranostic applications in medicine.

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In silico analysis of mycobacteriophage Che12 genome: Characterization of genes required to lysogenise Mycobacterium tuberculosis

Cited by 8 publications

References 29 publications

The First Structure of a Mycobacteriophage, the Mycobacterium abscessus subsp. bolletii Phage Araucaria

The First Structure of a Mycobacteriophage, the Mycobacterium abscessus subsp. bolletii Phage Araucaria

Mycobacteriophage Marvin: a New Singleton Phage with an Unusual Genome Organization

A Review on Mycobacteriophages: From Classification to Applications

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