Supplementary file 1_Hard to jump: host shifts appear unlikely in a T4-like phage evolved in the lab.docx

Supplementary file 1_Hard to jump: host shifts appear unlikely in a T4-like phage evolved in the lab.docx

Introduction<p>Bacteriophage therapy is emerging as a promising alternative to antibiotics, particularly in the face of rising antimicrobial resistance. However, concerns remain regarding host shifts, where therapeutic phages could evolve to infect and harm beneficial commensal bacteria. Under...

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Bibliografiske detaljer
Hovedforfatter:	Yu Ning (588573) (author)
Andre forfattere:	Enrique González-Tortuero (3514427) (author), Jeroen Wagemans (1743634) (author), Flor I. Arias-Sánchez (7329746) (author)
Udgivet:	2025
Fag:	Clinical Microbiology phage therapy host shifts virulence infection phage therapeutics
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Table 1_Hard to jump: host shifts appear unlikely in a T4-like phage evolved in the lab.xlsx
af: Yu Ning (588573)
Udgivet: (2025)

The host range and the composition of the phage community evolved during the experiment.
af: Celia Ferriol-González (22693472)
Udgivet: (2025)

Description of the isolated evolved phages.
af: Celia Ferriol-González (22693472)
Udgivet: (2025)

Table 7_Comprehensive analysis of phage genomes from diverse environments reveals their diversity, potential applications, and interactions with hosts and other phages.xlsx
af: Chao Wei (327736)
Udgivet: (2025)

Table 8_Comprehensive analysis of phage genomes from diverse environments reveals their diversity, potential applications, and interactions with hosts and other phages.xlsx
af: Chao Wei (327736)
Udgivet: (2025)

Table 6_Comprehensive analysis of phage genomes from diverse environments reveals their diversity, potential applications, and interactions with hosts and other phages.xlsx
af: Chao Wei (327736)
Udgivet: (2025)

Table 4_Comprehensive analysis of phage genomes from diverse environments reveals their diversity, potential applications, and interactions with hosts and other phages.xlsx
af: Chao Wei (327736)
Udgivet: (2025)

Table 5_Comprehensive analysis of phage genomes from diverse environments reveals their diversity, potential applications, and interactions with hosts and other phages.xlsx
af: Chao Wei (327736)
Udgivet: (2025)

Table 2_Comprehensive analysis of phage genomes from diverse environments reveals their diversity, potential applications, and interactions with hosts and other phages.xlsx
af: Chao Wei (327736)
Udgivet: (2025)

Table 3_Comprehensive analysis of phage genomes from diverse environments reveals their diversity, potential applications, and interactions with hosts and other phages.xlsx
af: Chao Wei (327736)
Udgivet: (2025)

Table 1_Comprehensive analysis of phage genomes from diverse environments reveals their diversity, potential applications, and interactions with hosts and other phages.xlsx
af: Chao Wei (327736)
Udgivet: (2025)

Supplementary file 1_Comprehensive analysis of phage genomes from diverse environments reveals their diversity, potential applications, and interactions with hosts and other phages.docx
af: Chao Wei (327736)
Udgivet: (2025)

Data Sheet 1_Stress-resistant but phage-sensitive host mutants induced by phage T4 ghost adsorption.pdf
af: Takehiko Kenzaka (22407556)
Udgivet: (2025)

Evolved variants K74_evo1 and K74_evo4 of phage B and differences in the increment of titer over time.
af: Celia Ferriol-González (22693472)
Udgivet: (2025)

Differences in the increment of titer over time between phage B and evolved variants K74_evo1 and K74_evo4.
af: Celia Ferriol-González (22693472)
Udgivet: (2025)

Phage adsorption time course.
af: Alexia L.M. Royer (22693792)
Udgivet: (2025)

Efficacy of plating (EOP) variation between phage variants of phages F and A compared to their ancestral phage in a subset of strains.
af: Celia Ferriol-González (22693472)
Udgivet: (2025)

Description of the initial phage community. The table includes each phage letter, phage name, K-type of its isolation strain, host range classification (G: generalist, S: specialist), taxonomic information, and source. A phage is classified as a specialist if it infects only a single bacterial strain within the community used in the evolution experiment, and a generalist if it can infect multiple strains.
af: Celia Ferriol-González (22693472)
Udgivet: (2025)

Host range of the three evolution lines of the phage community at different passages over the 77 <i>Klebsiella</i> reference serotypes collection.
af: Celia Ferriol-González (22693472)
Udgivet: (2025)

List of strains, plasmids, and phages used in this study.
af: Alexia L.M. Royer (22693792)
Udgivet: (2025)

Susceptibility to phage infection and phage adsorption on the FM2.5 or R20291 △<i>slpA</i> complemented strains with various SLCTs.
af: Alexia L.M. Royer (22693792)
Udgivet: (2025)

Mutations in the whole genomes, amino acid changes in the RBP, and EOP differences of phage variants compared to the ancestral phage.
af: Celia Ferriol-González (22693472)
Udgivet: (2025)

Table 1_Isolation and characterization of Salmonella phages for controlling bacterial infections.xlsx
af: Seyyed Danial Mirmiran (22703084)
Udgivet: (2025)

Evolving strategies of intracellular Hypervirulent <i>Klebsiella pneumoniae</i> during phage therapy: Reducing host autophagy and inflammation
af: Huale Chen (22787276)
Udgivet: (2025)

<b>Phage anti-defense genes targeting NAD</b><sup><strong>+</strong></sup><b> metabolism and DNA replication confer a broad host range against </b><b><i>Klebsiella pneumoniae</i></b>
af: bingbing lei (21622379)
Udgivet: (2025)

Phage susceptibility of FM2.5 complemented with SLCT-H4 or SLCT-H8.
af: Alexia L.M. Royer (22693792)
Udgivet: (2025)

Annotation of the phages in the community and analysis of mutations detected during the evolution experiment.
af: Celia Ferriol-González (22693472)
Udgivet: (2025)

Host range analysis result of selected eight phages.
af: Assefa Asnakew Abebe (22305305)
Udgivet: (2025)

Average sequencing depth of the genome sequences of the phages included in the community at different passages and lines.
af: Celia Ferriol-González (22693472)
Udgivet: (2025)

Detection of putative double-stranded DNA potential prophages in the phage cocktail evolution experiment.
af: Celia Ferriol-González (22693472)
Udgivet: (2025)

Phage susceptibility of strains expressing chimeric SLCT-L11/H4 and SLCT-L4/H11.
af: Alexia L.M. Royer (22693792)
Udgivet: (2025)

Phage susceptibility of strains expressing chimeric SLCT-L10/H4 and SLCT-L4/H10.
af: Alexia L.M. Royer (22693792)
Udgivet: (2025)

Phage susceptibility of strains expressing chimeric SLCT-L8/H4 and SLCT-L4/H8.
af: Alexia L.M. Royer (22693792)
Udgivet: (2025)

Phage susceptibility of strains expressing chimeric SLCT-L6/H4 and SLCT-L4/H6.
af: Alexia L.M. Royer (22693792)
Udgivet: (2025)

Effect of model parameters on phage lysis plaque expansion.
af: Julián Bulssico (16979655)
Udgivet: (2025)

Phage susceptibility of R20291 Δ<i>slpA</i> expressing SLCT-4 variants with partial D2 deletions.
af: Alexia L.M. Royer (22693792)
Udgivet: (2025)

Phylogenetic relationship and infection pattern against the 77 <i>Klebsiella</i> reference serotypes of the phages in the community.
af: Celia Ferriol-González (22693472)
Udgivet: (2025)

Genomic annotation, variability accumulation, and analysis of proteins under positive selection of phages that did not recombine during the experiment.
af: Celia Ferriol-González (22693472)
Udgivet: (2025)

Propagation profiles of phage T7 epidemics under PAS conditions.
af: Julián Bulssico (16979655)
Udgivet: (2025)

Additional file 3 of A link to the past: classical phage ISP infects the recently described Staphylococcus borealis species
af: Arthur Kruse Sørensen (22334835)
Udgivet: (2025)