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Viruses 2018, 10(8), 394; https://doi.org/10.3390/v10080394

Pectobacterium atrosepticum Phage vB_PatP_CB5: A Member of the Proposed Genus ‘Phimunavirus

1
Department of Biological Sciences, Cork Institute of Technology, T12 P928 Cork, Ireland
2
Department of Microbiology and Biotechnology, Max Rubner-Institut, 24103 Kiel, Germany
3
Department of Applied Sciences, University of the West of England, Bristol, Frenchay Campus, Coldharbour Lane, Bristol BS16 1QY, UK
4
Laboratory of Gene Technology, KU Leuven, 3001 Leuven, Belgium
5
APC Microbiome Institute, University College, T12 YT20 Cork, Ireland
*
Author to whom correspondence should be addressed.
Received: 25 May 2018 / Revised: 23 July 2018 / Accepted: 24 July 2018 / Published: 26 July 2018
(This article belongs to the Special Issue Bacteriophage Genomes and Genomics: News from the Wild)
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Abstract

Pectobacterium atrosepticum is a phytopathogen of economic importance as it is the causative agent of potato blackleg and soft rot. Here we describe the Pectobacterium phage vB_PatP_CB5 (abbreviated as CB5), which specifically infects the bacterium. The bacteriophage is characterized in detail and TEM micrographs indicate that it belongs to the Podoviridae family. CB5 shares significant pairwise nucleotide identity (≥80%) with P. atrosepticum phages φM1, Peat1, and PP90 and also shares common genome organization. Phylograms constructed using conserved proteins and whole-genome comparison-based amino acid sequences show that these phages form a distinct clade within the Autographivirinae. They also possess conserved RNA polymerase recognition and specificity loop sequences. Their lysis cassette resembles that of KP34virus, containing in sequential order a U-spanin, a holin, and a signal–arrest–release (SAR) endolysin. However, they share low pairwise nucleotide identity with the type phage of the KP34virus genus, Klebsiella phage KP34. In addition, phage KP34 does not possess several conserved proteins associated with these P. atrosepticum phages. As such, we propose the allocation of phages CB5, Peat1, φM1, and PP90 to a separate new genus designated Phimunavirus. View Full-Text
Keywords: Pectobacterium atrosepticum; Autographivirinae; ‘Phimunavirus’; bacteriophage; phage; Podoviridae Pectobacterium atrosepticum; Autographivirinae; Phimunavirus; bacteriophage; phage; Podoviridae
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Buttimer, C.; Lucid, A.; Neve, H.; Franz, C.M.A.P.; O’Mahony, J.; Turner, D.; Lavigne, R.; Coffey, A. Pectobacterium atrosepticum Phage vB_PatP_CB5: A Member of the Proposed Genus ‘Phimunavirus’. Viruses 2018, 10, 394.

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