Taxonomy of prokaryotic viruses: update from the ICTV bacterial and archaeal viruses subcommittee

Krupovìč, Mart; Dutilh, Bas E.; Adriaenssens, Evelien M.; Wittmann, Johannes; Vogensen, Fk; Mb, Sullivan; Rumnieks, J.; Prangishvili, David; Lavigne, Rob; Kropinski, Andrew M.; Klumpp, Jochen; Gillis, Annika; Enault, François; Edwards, Robert A.; Duffy, Siobain; Clokie, Martha R. J.; Barylski, Jakub; Ackermann, Hans-W.; Kuhn, Jens H.

doi:10.1007/s00705-015-2728-0

Cited by 81 publications

(74 citation statements)

References 23 publications

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“…Since the 8th Report of ICTV, both genome and proteome-based methods have been used by the BAVS to classify phages into species, genera, and subfamilies, resulting in 14 subfamilies, 204 genera, and 873 species in the 2015 taxonomy release [15,16,17,18,19,20]. …”

Section: Introductionmentioning

confidence: 99%

How to Name and Classify Your Phage: An Informal Guide

Adriaenssens

Brister

2017

Viruses

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With this informal guide, we try to assist both new and experienced phage researchers through two important stages that follow phage discovery; that is, naming and classification. Providing an appropriate name for a bacteriophage is not as trivial as it sounds, and the effects might be long-lasting in databases and in official taxon names. Phage classification is the responsibility of the Bacterial and Archaeal Viruses Subcommittee (BAVS) of the International Committee on the Taxonomy of Viruses (ICTV). While the BAVS aims at providing a holistic approach to phage taxonomy, for individual researchers who have isolated and sequenced a new phage, this can be a little overwhelming. We are now providing these researchers with an informal guide to phage naming and classification, taking a “bottom-up” approach from the phage isolate level.

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Section: Introductionmentioning

confidence: 99%

How to Name and Classify Your Phage: An Informal Guide

Adriaenssens

Brister

2017

Viruses

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351

246

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“…A hallmark of archaeal viruses is the high morphological diversity of the capsids that enclose their genetic material Pina et al 2011;Prangishvili 2013;Dellas et al 2014). Even though viruses have only been isolated from a limited set of archaeal species, the high structural diversity of those isolated has led to the description of several new viral families (Pina et al 2011;Krupovic et al 2016;Adriaenssens et al 2017). For this reason, it is anticipated that the isolation of new viruses from other species will result in the discovery of novel, as yet unknown virion (viral particle) structures.…”

Section: Introductionmentioning

confidence: 99%

Structure and assembly mechanism of virus-associated pyramids

Quax

Daum

2017

Biophys Rev

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Viruses have developed intricate molecular machines to infect, replicate within and escape from their host cells. Perhaps one of the most intriguing of these mechanisms is the pyramidal egress structure that has evolved in archaeal viruses, such as SIRV2 or STIV1. The structure and mechanism of these virus-associated pyramids (VAPs) has been studied by cryo-electron tomography and complementary biochemical techniques, revealing that VAPs are formed by multiple copies of a virus-encoded 10-kDa protein (PVAP) that integrate into the cell membrane and assemble into hollow, sevenfold symmetric pyramids. In this process, growing VAPs puncture the protective surface layer and ultimately open to release newly replicated viral particles into the surrounding medium. PVAP has the striking capability to spontaneously integrate and self-assemble into VAPs in biological membranes of the archaea, bacteria and eukaryotes. This renders the VAP a universal membrane remodelling system. In this review, we provide an overview of the VAP structure and assembly mechanism and discuss the possible use of VAPs in nanobiotechnology.

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“…The Bacterial and Archaeal Viruses Subcommittee of the International Committee on Taxonomy of Viruses (ICTV) has taken a holistic approach to the classification of phages, employing overall DNA and protein sequence identities coupled with phylogenetic analyses5657. An initial BLASTN analysis of the complete genome sequence of MP1 revealed that Proteus phage Pm5461 is its closest relative, but these phages only share 39% overall sequence identity.…”

Section: Resultsmentioning

confidence: 99%

Characterization and genomic analyses of two newly isolated Morganella phages define distant members among Tevenvirinae and Autographivirinae subfamilies

Oliveira

Pinto

Oliveira

et al. 2017

Sci Rep

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Morganella morganii is a common but frequent neglected environmental opportunistic pathogen which can cause deadly nosocomial infections. The increased number of multidrug-resistant M. morganii isolates motivates the search for alternative and effective antibacterials. We have isolated two novel obligatorily lytic M. morganii bacteriophages (vB_MmoM_MP1, vB_MmoP_MP2) and characterized them with respect to specificity, morphology, genome organization and phylogenetic relationships. MP1’s dsDNA genome consists of 163,095 bp and encodes 271 proteins, exhibiting low DNA (<40%) and protein (<70%) homology to other members of the Tevenvirinae. Its unique property is a >10 kb chromosomal inversion that encompass the baseplate assembly and head outer capsid synthesis genes when compared to other T-even bacteriophages. MP2 has a dsDNA molecule with 39,394 bp and encodes 55 proteins, presenting significant genomic (70%) and proteomic identity (86%) but only to Morganella bacteriophage MmP1. MP1 and MP2 are then novel members of Tevenvirinae and Autographivirinae, respectively, but differ significantly from other tailed bacteriophages of these subfamilies to warrant proposing new genera. Both bacteriophages together could propagate in 23 of 27 M. morganii clinical isolates of different origin and antibiotic resistance profiles, making them suitable for further studies on a development of bacteriophage cocktail for potential therapeutic applications.

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Taxonomy of prokaryotic viruses: update from the ICTV bacterial and archaeal viruses subcommittee

Cited by 81 publications

References 23 publications

How to Name and Classify Your Phage: An Informal Guide

How to Name and Classify Your Phage: An Informal Guide

Structure and assembly mechanism of virus-associated pyramids

Characterization and genomic analyses of two newly isolated Morganella phages define distant members among Tevenvirinae and Autographivirinae subfamilies

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