Enterococcus phage Nonaheksakonda infecting clinical isolates of Enterococcus faecalis represents a new lineage in the family Siphoviridae

Olsen, Nikoline S.; Nielsen, Katrine Johansen; Plöger, Maja; Kot, Witold; Hansen, Lars Hestbjerg

doi:10.1007/s00705-020-04905-y

Cited by 10 publications

(4 citation statements)

References 39 publications

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“…Even if vB_PstM_ZRG1 has the potential to become a new genus, the limited nucleotide sequence similarity to other isolated phage is an important indicator that can give solid support for the designation of a new genus ( Olsen et al., 2021 ). Comparative genomic analysis was conducted between vB_PstM_ZRG1 and closely related viruses using multiple approaches.…”

Section: Resultsmentioning

confidence: 99%

Characterization and genomic analysis of a novel lytic phage vB_PstM_ZRG1 infecting Stutzerimonas stutzeri, representing a new viral genus, Elithevirus

et al. 2023

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Section: Resultsmentioning

confidence: 99%

Characterization and genomic analysis of a novel lytic phage vB_PstM_ZRG1 infecting Stutzerimonas stutzeri, representing a new viral genus, Elithevirus

et al. 2023

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“…They cause negligible off-target changes in the host microbiota, are easy to isolate and can be effective against biofilms [ 190 ]. New phages against clinically relevant VRE have recently been isolated [ 174 , 191 , 192 ], but not many phages have been characterised with specific activity against VREfm. The bacteriophage IME-EFm5 was isolated from hospital sewage and is a rare example of an E. faecium lytic phage [ 177 ].…”

Section: Introductionmentioning

confidence: 99%

Promiscuous, persistent and problematic: insights into current enterococcal genomics to guide therapeutic strategy

Hourigan,

Stefanovic,

Hill

et al. 2024

BMC Microbiol

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Vancomycin-resistant enterococci (VRE) are major opportunistic pathogens and the causative agents of serious diseases, such as urinary tract infections and endocarditis. VRE strains mainly include species of Enterococcus faecium and E. faecalis which can colonise the gastrointestinal tract (GIT) of patients and, following growth and persistence in the gut, can transfer to blood resulting in systemic dissemination in the body. Advancements in genomics have revealed that hospital-associated VRE strains are characterised by increased numbers of mobile genetic elements, higher numbers of antibiotic resistance genes and often lack active CRISPR-Cas systems. Additionally, comparative genomics have increased our understanding of dissemination routes among patients and healthcare workers. Since the efficiency of currently available antibiotics is rapidly declining, new measures to control infection and dissemination of these persistent pathogens are urgently needed. These approaches include combinatory administration of antibiotics, strengthening colonisation resistance of the gut microbiota to reduce VRE proliferation through commensals or probiotic bacteria, or switching to non-antibiotic bacterial killers, such as bacteriophages or bacteriocins. In this review, we discuss the current knowledge of the genomics of VRE isolates and state-of-the-art therapeutic advances against VRE infections.

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“…Phages keep dominant bacteria in check by ‘killing the winner’ through lysis, which results in the release of organic matter from the exterminated host used by other prokaryotes [ 5 ]. The ability of phages to attack and lyse very specific host bacteria has sparked a significant interest to discover novel phages to fight pathogens in phage therapy (human infections) and phage biocontrol (agriculture) [ 6 , 7 , 8 , 9 , 10 , 11 ].…”

Section: Introductionmentioning

confidence: 99%

Metaviromes Reveal the Dynamics of Pseudomonas Host-Specific Phages Cultured and Uncultured by Plaque Assay

Alanin

Forero-Junco

Jørgensen

et al. 2021

Viruses

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Isolating single phages using plaque assays is a laborious and time-consuming process. Whether single isolated phages are the most lyse-effective, the most abundant in viromes, or those with the highest ability to make plaques in solid media is not well known. With the increasing accessibility of high-throughput sequencing, metaviromics is often used to describe viruses in environmental samples. By extracting and sequencing metaviromes from organic waste with and without exposure to a host-of-interest, we show a host-related phage community’s shift, as well as identify the most enriched phages. Moreover, we isolated plaque-forming single phages using the same virome–host matrix to observe how enrichments in liquid media correspond to the metaviromic data. In this study, we observed a significant shift (p = 0.015) of the 47 identified putative Pseudomonas phages with a minimum twofold change above zero in read abundance when adding a Pseudomonas syringae DC3000 host. Surprisingly, it appears that only two out of five plaque-forming phages from the same organic waste sample, targeting the Pseudomonas strain, were highly abundant in the metavirome, while the other three were almost absent despite host exposure. Lastly, our sequencing results highlight how long reads from Oxford Nanopore elevates the assembly quality of metaviromes, compared to short reads alone.

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Enterococcus phage Nonaheksakonda infecting clinical isolates of Enterococcus faecalis represents a new lineage in the family Siphoviridae

Cited by 10 publications

References 39 publications

Characterization and genomic analysis of a novel lytic phage vB_PstM_ZRG1 infecting Stutzerimonas stutzeri, representing a new viral genus, Elithevirus

Characterization and genomic analysis of a novel lytic phage vB_PstM_ZRG1 infecting Stutzerimonas stutzeri, representing a new viral genus, Elithevirus

Promiscuous, persistent and problematic: insights into current enterococcal genomics to guide therapeutic strategy

Metaviromes Reveal the Dynamics of Pseudomonas Host-Specific Phages Cultured and Uncultured by Plaque Assay

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