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Archives of Virology
Published in: Archives of Virology 10/2019

01-10-2019 | Annotated Sequence Record

Raoultella bacteriophage RP180, a new member of the genus Kagunavirus, subfamily Guernseyvirinae

Authors: Mikhail V. Fofanov, Vera V. Morozova, Yuliya N. Kozlova, Artem Yu. Tikunov, Igor V. Babkin, Yuliya E. Poletaeva, Elena I. Ryabchikova, Nina V. Tikunova

Published in: Archives of Virology | Issue 10/2019

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Abstract

A novel lytic Raoultella phage, RP180, was isolated and characterized. The RP180 genome has 44,851 base pairs and contains 65 putative genes, 35 of them encoding proteins whose functions were predicted based on sequence similarity to known proteins. The RP180 genome possesses a gene synteny typical of members of the subfamily Guernseyvirinae. Phylogenetic analysis of the RP180 genome and similar phage genomes revealed that phage RP180 is the first member of the genus Kagunavirus, subfamily Guernseyvirinae, that is specific for Raoultella sp. The genome of RP180 encodes a putative protein with similarity to CRISPR-like Cas4 nucleases, which belong to the pfam12705/PDDEXK_1 family. Cas4-like proteins of this family have been shown to interfere with the bacterial host type II-C CRISPR-Cas system.
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Literature
1.
Drancourt M, Bollet C, Carta A, Rousselier P (2001) Phylogenetic analyses of Klebsiella species delineate Klebsiella and Raoultella gen. nov., with description of Raoultella ornithinolytica comb. nov., Raoultella terrigena comb. nov. and Raoultella planticola comb. nov. Int J Syst Evol Microbiol 51(3):925–932PubMedCrossRef
2.
Ershadi A, Weiss E, Verduzco E et al (2014) Emerging pathogen: a case and review of Raoultella planticola. Infection 42(6):1043–1046PubMedCrossRef
3.
Fager C, Yurteri-Kaplan L (2018) Urinary tract infection with rare pathogen Raoultella planticola: a post-operative case and review. Urol Case Rep 22:76–79PubMedPubMedCentralCrossRef
4.
Mehmood H, Pervin N, Ul Haq MI et al (2018) A rare case of Raoultella planticola urinary tract infection in a patient with immunoglobulin A nephropathy. J Investig Med High Impact Case Rep 6:1–3
5.
Hajjar R, Schwenter F, Sebajang H et al (2018) Community-acquired infection to Raoultella ornithinolytica presenting as appendicitis and shock in a healthy individual. J Surg Case Rep 5:1–3
6.
Chen DQ, Song JL, Tang HX et al (2014) Extensively drug-resistant Raoultella planticola carrying multiple resistance genes including blaNDM-1. JMM Case Rep 1(3):3–5CrossRef
7.
Morozova V, Kozlova Y, Shedko E et al (2016) Lytic bacteriophage PM16 specific for Proteus mirabilis: a novel member of the genus Phikmvvirus. Arch Virol 161(9):2457–2472PubMedCrossRef
8.
Okonechnikov K, Golosova O, Fursov M et al (2012) Unipro UGENE: a unified bioinformatics toolkit. Bioinformatics 28(8):1166–1167PubMedCrossRef
9.
Lu G, Moriyama EN (2004) Vector NTI, a balanced all-in-one sequence analysis suite. Brief Bioinform 5(4):378–388PubMedCrossRef
10.
Lowe TM, Chan PP (2012) tRNAscan-SE On-line: integrating search and context for analysis of transfer RNA genes. Nucl Acids Res 44:54–57CrossRef
11.
Liu B, Zheng D, Jin Q et al (2019) VFDB 2019: a comparative pathogenomic platform with an interactive web interface. Nucl Acids Res 47(D1):D687–D692PubMedCrossRef
12.
Katoh K, Rozewicki J, Yamada KD (2017) MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization. Brief Bioinform 18:1–7CrossRef
13.
Grant JR, Stothard P (2008) The CGView server: a comparative genomics tool for circular genomes. Nucl Acids Res 36:181–184CrossRef
14.
Phillips JL, Gnanakaran S (2015) BioEdit: an important software for molecular biology. Proteins Struct Funct Bioinform 83(1):46–65CrossRef
15.
Guindon S, Dufayard J, Lefort V et al (2010) New algorithms and methods to estimate maximim-likelihood phylogenies assessing the performance of PhyML 3.0. Syst Biol 59(3):1–37CrossRef
16.
Ackermann H-W (2009) Phage classification and characterization. In: Clokie MR, Kropinski AM (eds) Bacteriophages methods protocol, vol 1. ISOL character interaction. Humana Press, New York, pp 127–140CrossRef
17.
Anany H, Switt AIM, De Lappe N et al (2015) A proposed new bacteriophage subfamily: Jerseyvirinae. Arch Virol 160(4):1021–1033PubMedCrossRef
18.
Hooton SPT, Connerton IF (2015) Campylobacter jejuni acquire new host-derived CRISPR spacers when in association with bacteriophages harboring a CRISPR-like Cas4 protein. Front Microbiol 5:1–9CrossRef
19.
Hooton SPT, Brathwaite KJ, Connerton IF (2016) The bacteriophage carrier state of Campylobacter jejuni features changes in host non-coding RNAs and the acquisition of new host-derived CRISPR spacer sequences. Front Microbiol 7:1–8CrossRef
20.
Hudaiberdiev S, Shmakov S, Wolf YI et al (2017) Phylogenomics of Cas4 family nucleases. BMC Evol Biol 17(1):1–14CrossRef
21.
Retamales J, Vasquez I, Santos L et al (2016) Complete genome sequences of lytic bacteriophages of Xanthomonas arboricola pv. juglandis. Genome Announc 4(3):3–4CrossRef
22.
Li E, Wei X, Ma Y et al (2016) Isolation and characterization of a bacteriophage phiEap-2 infecting multidrug resistant Enterobacter aerogenes. Sci Rep 6(1):1–9CrossRef
23.
Denyes JM, Krell PJ, Manderville RA et al (2014) The genome and proteome of Serratia bacteriophage η which forms unstable lysogens. Virol J 11(1):1–8CrossRef
Metadata
Title
Raoultella bacteriophage RP180, a new member of the genus Kagunavirus, subfamily Guernseyvirinae
Authors
Mikhail V. Fofanov
Vera V. Morozova
Yuliya N. Kozlova
Artem Yu. Tikunov
Igor V. Babkin
Yuliya E. Poletaeva
Elena I. Ryabchikova
Nina V. Tikunova
Publication date
01-10-2019
Publisher
Springer Vienna
Published in
Archives of Virology / Issue 10/2019
Print ISSN: 0304-8608
Electronic ISSN: 1432-8798
DOI
https://doi.org/10.1007/s00705-019-04349-z

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