A Genome of Temperate <i>Enterococcus</i> Bacteriophage Placed in a Space of Pooled Viral Dark Matter Sequences
Ivan M. Pchelin,
Pavel V. Tkachev,
Daniil V. Azarov,
Andrey N. Gorshkov,
Daria O. Drachko,
Vasily V. Zlatogursky,
Alexander V. Dmitriev,
Artemiy E. Goncharov
Affiliations
Ivan M. Pchelin
Scientific and Educational Center “Molecular Bases of Interaction of Microorganisms and Human” of the WCRC “Center for Personalized Medicine”, Institute of Experimental Medicine, 197022 Saint Petersburg, Russia
Pavel V. Tkachev
Scientific and Educational Center “Molecular Bases of Interaction of Microorganisms and Human” of the WCRC “Center for Personalized Medicine”, Institute of Experimental Medicine, 197022 Saint Petersburg, Russia
Daniil V. Azarov
Scientific and Educational Center “Molecular Bases of Interaction of Microorganisms and Human” of the WCRC “Center for Personalized Medicine”, Institute of Experimental Medicine, 197022 Saint Petersburg, Russia
Andrey N. Gorshkov
Smorodintsev Research Institute of Influenza, Ministry of Health of the Russian Federation, 197376 Saint Petersburg, Russia
Daria O. Drachko
Laboratory of Cellular and Molecular Protistology, Zoological Institute of the Russian Academy of Sciences, 199034 Saint Petersburg, Russia
Vasily V. Zlatogursky
Department of Invertebrate Zoology, Faculty of Biology, St. Petersburg State University, 199034 Saint Petersburg, Russia
Alexander V. Dmitriev
Scientific and Educational Center “Molecular Bases of Interaction of Microorganisms and Human” of the WCRC “Center for Personalized Medicine”, Institute of Experimental Medicine, 197022 Saint Petersburg, Russia
Artemiy E. Goncharov
Scientific and Educational Center “Molecular Bases of Interaction of Microorganisms and Human” of the WCRC “Center for Personalized Medicine”, Institute of Experimental Medicine, 197022 Saint Petersburg, Russia
In the human gut, temperate bacteriophages interact with bacteria through predation and horizontal gene transfer. Relying on taxonomic data, metagenomic studies have associated shifts in phage abundance with a number of human diseases. The temperate bacteriophage VEsP-1 with siphovirus morphology was isolated from a sample of river water using Enterococcus faecalis as a host. Starting from the whole genome sequence of VEsP-1, we retrieved related phage genomes in blastp searches of the tail protein and large terminase sequences, and blastn searches of the whole genome sequences, with matches compiled from several different databases, and visualized a part of viral dark matter sequence space. The genome network and phylogenomic analyses resulted in the proposal of a novel genus “Vespunovirus”, consisting of temperate, mainly metagenomic phages infecting Enterococcus spp.
