<i>K. pneumoniae</i>ST258 genomic variability and bacteriophage susceptibility

Venturini, Carola; Zakour, Nouri L. Ben; Bowring, Bethany; Morales, Sandra; Cole, Robert L.; Kovách, Zsuzsanna; Branston, Steven; Kettle, Emma; Thomson, Nicholas R.; Iredell, Jonathan R.

doi:10.1101/628339

Cited by 4 publications

(2 citation statements)

References 56 publications

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“…This seems independent of their genetic relatedness, since we observed infections between strains with the same CLT that are phylogenetically distant. This CLT specificity is consistent with a recent study that focuses on a carbapenemase-producing K. pneumoniae CG258, in which very few phages could lyse bacteria with different CLT [86]. The CLT specificity of phage-encoded depolymerases [40-42, 44, 47, 48, 87, 88] could explain these results.…”

Section: Discussionsupporting

confidence: 91%

Modular prophage interactions driven by capsule serotype select for capsule loss under phage predation

et al. 2020

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Klebsiella species are able to colonize a wide range of environments and include worrisome nosocomial pathogens. Here, we sought to determine the abundance and infectivity of prophages of Klebsiella to understand how the interactions between induced prophages and bacteria affect population dynamics and evolution. We identified many prophages in the species, placing these taxa among the top 5% of the most polylysogenic bacteria. We selected 35 representative strains of the Klebsiella pneumoniae species complex to establish a network of induced phage–bacteria interactions. This revealed that many prophages are able to enter the lytic cycle, and subsequently kill or lysogenize closely related Klebsiella strains. Although 60% of the tested strains could produce phages that infect at least one other strain, the interaction network of all pairwise cross-infections is very sparse and mostly organized in modules corresponding to the strains’ capsule serotypes. Accordingly, capsule mutants remain uninfected showing that the capsule is a key factor for successful infections. Surprisingly, experiments in which bacteria are predated by their own prophages result in accelerated loss of the capsule. Our results show that phage infectiousness defines interaction modules between small subsets of phages and bacteria in function of capsule serotype. This limits the role of prophages as competitive weapons because they can infect very few strains of the species complex. This should also restrict phage-driven gene flow across the species. Finally, the accelerated loss of the capsule in bacteria being predated by their own phages, suggests that phages drive serotype switch in nature.

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Section: Discussionsupporting

confidence: 91%

Modular prophage interactions driven by capsule serotype select for capsule loss under phage predation

et al. 2020

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“…Venturini et al 2019). The CLT-specificity of phage-encoded depolymerases(Hsieh et al 2017, Lin et al 2014, Majkowska-Skrobek et al 2018, Niemann et al 1977a, Niemann et al 1977b, Pan et al 2017, Pan et al 2019, Thurow et al 1974 could explain these results.…”

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confidence: 91%

Modular prophage interactions driven by capsule serotype select for capsule loss under phage predation

Sousa

Nucci

Haudiquet

et al. 2019

Preprint

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Klebsiella species are able to colonize a wide range of environments and include worrisome nosocomial pathogens. Here, we sought to determine the abundance and infectivity of prophages of Klebsiella to understand how the interactions between induced prophages and bacteria affect population dynamics and evolution. We identified many prophages in the species, placing these taxa among the top 5% of the most polylysogenic bacteria. We selected 35 representative strains of the Klebsiella pneumoniae species complex to establish a network of induced phage-bacteria interactions. This revealed that many prophages are able to enter the lytic cycle, and subsequently kill or lysogenize closely-related Klebsiella strains. Although 60% of the tested strains could produce phages that infect at least one other strain, the interaction network of all pairwise cross-infections is very sparse and mostly organized in modules corresponding to the strains capsule serotypes. Accordingly, capsule mutants remain uninfected showing that the capsule is a key factor for successful infections. Surprisingly, experiments in which bacteria are predated by their own prophages result in accelerated loss of the capsule. Our results show that phage infectiousness defines interaction modules between small subsets of phages and bacteria in function of capsule serotype. This limits the role of prophages as competitive weapons because they can infect very few strains of the species complex. This should also restrict phage-driven gene flow across the species. Finally, the accelerated loss of the capsule in bacteria being predated by their own phages, suggests that phages drive serotype switch in nature.

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Differential effects of antibiotic treatment with piperacillin/tazobactam or ceftriaxone on the murine gut microbiota

Venturini

Bowring

Fajardo-Lubián

et al. 2020

Preprint

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Effective antimicrobial stewardship requires a better understanding of the impact of different antibiotics on the gut microflora. Studies in humans are confounded by large inter-individual variability and difficulty in identifying control cohorts. However, controlled murine models can provide valuable information. We examined the impact of a penicillin-like antibiotic (piperacillin/tazobactam, TZP) or a third-generation cephalosporin (ceftriaxone, CRO) on the murine gut microbiota. We analyzed gut microbiome composition by 16S-rRNA amplicon sequencing and effects on the Enterobacteriaceae by qPCR and standard microbiology.Colonization resistance to multidrug resistant Escherichia coli ST131 and Klebsiella pneumoniae ST258 was also tested. Changes in microbiome composition and a significant (p<0.001) decrease in diversity occurred in all treated mice, but were more marked and longer lasting after CRO exposure with a persistent rise in Proteobacteria levels. Increases in the Enterobacteriaceae occurred in all antibiotic treated mice, but were transient and associated with direct antibiotic pressure. Co-habitation of treated and untreated mice attenuated the detrimental effect of antibiotics on treated animals, but also caused disturbance in untreated co-habitants. At the height of dysbiosis after antibiotic termination, the murine gut was highly susceptible to colonization with both multidrug resistant pathogens. The administration of a third-generation cephalosporin caused a significantly prolonged dysbiosis in the murine gut microflora, when compared to a penicillin/β-lactam inhibitor combination with comparable activity against medically important virulent bacteria. At the height of dysbiosis, both antibiotic treatments equally led to microbial imbalance associated with loss of resistance to gut colonization by antibiotic-resistant pathogens.

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K. pneumoniaeST258 genomic variability and bacteriophage susceptibility

Cited by 4 publications

References 56 publications

Modular prophage interactions driven by capsule serotype select for capsule loss under phage predation

Modular prophage interactions driven by capsule serotype select for capsule loss under phage predation

Modular prophage interactions driven by capsule serotype select for capsule loss under phage predation

Differential effects of antibiotic treatment with piperacillin/tazobactam or ceftriaxone on the murine gut microbiota

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