Characterization and Complete Genome Analysis of Pseudomonas aeruginosa Bacteriophage vB_PaeP_LP14 Belonging to Genus Litunavirus

Shi, Xiaojie; Zhao, Feiyang; Sun, Huzhi; Yu, Xiaoyan; Zhang, Can; Liu, Wenhua; Pan, Qinxue; Ren, Huiying

doi:10.1007/s00284-020-02011-5

“…A Blastp analysis revealed that the large terminase of ϕKp27 is highly similar (99% query cover, >70% identity) to the large terminase of N4-like phages. 50,51 The crystal structure of both the large and small terminase subunits of N4 have been resolved, 49 but the mechanism of genome packaging is yet to be described and may reveal a mechanism different from those known so far, and which seems to be common to a number of phages.…”

Section: Resultsmentioning

confidence: 99%

Genomic characterization of four novel bacteriophages infecting the clinical pathogenKlebsiella pneumoniae

Bonilla

¹

,

Costa

²

,

Rossum

³

et al. 2021

Preprint

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Bacteriophages are an invaluable source of novel genetic diversity. Sequencing of phage genomes can reveal new proteins with potential uses as biotechnological and medical tools, and help unravel the diversity of biological mechanisms employed by phages to take over the host during viral infection. Aiming to expand the available collection of phage genomes, we have isolated, sequenced, and assembled the genome sequences of four phages that infect the clinical pathogen Klebsiella pneumoniae: vB_KpnP_FBKp16, vB_KpnP_FBKp27, vB_KpnM_FBKp34, and Jumbo phage vB_KpnM_FBKp24. The four phages show very low (0-13%) identity to genomic phage sequences deposited in the Genbank database. Three of the four phages encode tRNAs and have a GC content very dissimilar to that of the host. Importantly, the genome sequences of the phages reveal potentially novel DNA packaging mechanisms as well as distinct clades of tubulin spindle and nucleus shell proteins that some phages use to compartmentalize viral replication. Overall, this study contributes to uncovering previously unknown virus diversity, and provides novel candidates for phage therapy applications against antibiotic-resistant K. pneumoniae infections.

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“…The terminase of ϕKp27 appears as the most distanced in the phylogenetic tree ( Fig. 4a ), but a Blastp analysis revealed high similarity (99% query cover, >70% identity) to the large terminase of N4-like phages, 58 , 59 suggesting a packaging mechanism of short direct terminal repeats, as predicted also by PhageTerm ( Table 1 ).…”

Section: Resultsmentioning

confidence: 80%

Genomic characterization of four novel bacteriophages infecting the clinical pathogen Klebsiella pneumoniae

Bonilla

¹

,

Costa

²

,

Berg

³

et al. 2021

View full text Add to dashboard Cite

Bacteriophages are an invaluable source of novel genetic diversity. Sequencing of phage genomes can reveal new proteins with potential uses as biotechnological and medical tools, and help unravel the diversity of biological mechanisms employed by phages to take over the host during viral infection. Aiming to expand the available collection of phage genomes, we have isolated, sequenced, and assembled the genome sequences of four phages that infect the clinical pathogen Klebsiella pneumoniae: vB_KpnP_FBKp16, vB_KpnP_FBKp27, vB_KpnM_FBKp34, and Jumbo phage vB_KpnM_FBKp24. The four phages show very low (0-13%) identity to genomic phage sequences deposited in the Genbank database. Three of the four phages encode tRNAs and have a GC content very dissimilar to that of the host. Importantly, the genome sequences of the phages reveal potentially novel DNA packaging mechanisms as well as distinct clades of tubulin spindle and nucleus shell proteins that some phages use to compartmentalize viral replication. Overall, this study contributes to uncovering previously unknown virus diversity, and provides novel candidates for phage therapy applications against antibiotic-resistant K. pneumoniae infections.

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“…aeruginosa were comparable to uninfected cultures (Fig 7A-C; compare to Fig 6A-C). CMS1produced a biphasic replication curve, similar to other N4-like phage species(Shi et al, 2020), and the presence of 50 mM exogenous putrescine had no significant impact on CMS1 titers compared to control cultures (Fig7D-F). In addition to CMS1, the N4-like phage KPP21(Shigehisa et al, 2016) was also not affected by exogenous putrescine (FigS7).…”

mentioning

confidence: 58%

“…Cell lysate and putrescine inhibited phages F8, DMS3vir, JBD26, and Pf4, but not phage CMS1 ( Fig 1A, Fig 3F and G ). CMS1 is a lytic N4-like phage in the family Podoviridae genus Litunavirus (Menon et al, 2021; Shi et al, 2020; Wagemans et al, 2014). Because CMS1 was able to replicate in a P. aeruginosa host in the presence of 50 mM putrescine, we reasoned that infection by CMS1 would not stimulate intracellular polyamine accumulation.…”

Section: Resultsmentioning

confidence: 99%

“…In addition to intracellular polyamines, we also measured DMS3vir titers in bacterial supernatants collected from the cultures described above by plaque assay. In wild-type P. Litunavirus (Menon et al, 2021;Shi et al, 2020;Wagemans et al, 2014). Because CMS1 was able to replicate in a P. aeruginosa host in the presence of 50 mM putrescine, we reasoned that infection by CMS1 would not stimulate intracellular polyamine accumulation.…”

Section: Intracellular Polyamine Accumulation Suppresses Dms3vir Repl...mentioning

confidence: 99%

See 1 more Smart Citation

Bacterial threat assessment of bacteriophage infection is mediated by intracellular polyamine accumulation and Gac/Rsm signaling

Mattos

¹

,

Nemudryi

²

,

Faith

³

et al. 2022

Preprint

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When eukaryotic cells are killed by pathogenic microorganisms, damage-associated and pathogen-associated signals are generated that alert other cells of nearby danger. Bacteria can detect the death of their kin; however, how bacteria make threat assessments of cellular injury is largely unexplored. Here we show that polyamines released by lysed bacteria serve as damage-associated molecules in Pseudomonas aeruginosa. In response to exogenous polyamines, Gac/Rsm and cyclic-di-GMP signaling is activated and intracellular polyamine levels increase. In the absence of a threat, polyamines are catabolized, and intracellular polyamines return to basal levels, but cells infected by bacteriophage increase and maintain intracellular polyamine levels, which inhibits phage replication. Phage species not inhibited by polyamines did not trigger polyamine accumulation by P. aeruginosa, suggesting polyamine accumulation and metabolism are targets in the phage-host arms-race. Our results suggest that like eukaryotic cells, bacteria can differentiate damage-associated and pathogen-associated signals to make threat assessments of cellular injury.

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Characterization and Complete Genome Analysis of Pseudomonas aeruginosa Bacteriophage vB_PaeP_LP14 Belonging to Genus Litunavirus

Cited by 19 publications

References 39 publications

Genomic characterization of four novel bacteriophages infecting the clinical pathogenKlebsiella pneumoniae

Genomic characterization of four novel bacteriophages infecting the clinical pathogenKlebsiella pneumoniae

Genomic characterization of four novel bacteriophages infecting the clinical pathogen Klebsiella pneumoniae

Bacterial threat assessment of bacteriophage infection is mediated by intracellular polyamine accumulation and Gac/Rsm signaling

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