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Volume 168, Issue 9

Extended genomic analyses of the broad-host-range phages vB_KmiM-2Di and vB_KmiM-4Dii reveal slopekviruses have highly conserved genomes Open Access

Abstract

High levels of antimicrobial resistance among members of the complex (KoC) have led to renewed interest in the use of bacteriophage (phage) therapy to tackle infections caused by these bacteria. In this study we characterized two lytic phages, vB_KmiM-2Di and vB_KmiM-4Dii, that were isolated from sewage water against two GES-5-positive strains (PS_Koxy2 and PS_Koxy4, respectively). ViPTree analysis showed both phages belonged to the genus gene-based sequence analysis of 108 presumptive isolates (=59 clinical, =49 veterinary) found to be more prevalent (46 % clinical and 43 % veterinary, respectively) than (40 % clinical and 6 % veterinary, respectively). Host range analysis against these 108 isolates found both vB_KmiM-2Di and vB_KmiM-4Dii showed broad lytic activity against KoC species. Several hypothetical homing endonuclease genes were encoded within the genomes of both phages, which may contribute to their broad host range. Differences in the tail fibre protein may explain the non-identical host range of the two phages. Pangenome analysis of 24 slopekviruses found that genomes within this genus are highly conserved, with more than 50 % of all predicted coding sequences representing core genes at ≥95 % identity and ≥70 % coverage. Given their broad host ranges, our results suggest vB_KmiM-2Di and vB_KmiM-4Dii represent attractive potential therapeutics. In addition, current recommendations for phage-based pangenome analyses may require revision.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): homing endonuclease , Klebsiella oxytoca complex , lytic phage , myovirus , pangenome , phage diversity and Slopekvirus
Funding
This study was supported by the:
  • Medical Research Council (Award MR/L01632X/1)
    • Principle Award Recipient: LesleyHoyles
  • Institute of Biomedical Science
    • Principle Award Recipient: PreethaShibu
© 2022 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution NonCommercial License. This article was made open access via a Publish and Read agreement between the Microbiology Society and the corresponding author’s institution.
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2022-09-26
2024-04-18
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Extended genomic analyses of the broad-host-range phages vB_KmiM-2Di and vB_KmiM-4Dii reveal slopekviruses have highly conserved genomes
Microbiology 168, 001247 (2022); https://doi.org/10.1099/mic.0.001247
/content/journal/micro/10.1099/mic.0.001247
/content/journal/micro/10.1099/mic.0.001247
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