Effect of model parameters on phage lysis plaque expansion.

Effect of model parameters on phage lysis plaque expansion.

<p>Phage lysis plaque radius r expansion kinetics (main panels) are obtained by integration of velocity changes over time (insets). The velocity scaling factor δβ is kept constant at value 1.0 (Eq. 18). <b>(a, b)</b> <i>Effect of cell morphological parameters.</i> Chang...

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Príomhchruthaitheoir:	Julián Bulssico (16979655) (author)
Rannpháirtithe:	Swapnesh Panigrahi (400344) (author), Mélanie Matveeva (22367417) (author), Nicolas Ginet (253310) (author), Mireille Ansaldi (207607) (author)
Foilsithe / Cruthaithe:	2025
Ábhair:	Biophysics Medicine Microbiology Cell Biology Pharmacology Biotechnology Evolutionary Biology Ecology Infectious Diseases Virology Biological Sciences not elsewhere classified key factor leading experiencing renewed interest immobilized bacterial hosts comprehensive model integrating better bacterial eradication cell bloating ). since plaque formation phage therapeutic applications sublethal antibiotic concentrations previous experimental work larger lysis plaques also parameters related two different phages host growth dynamics plaque size observed antibiotics enable phages phage infection parameters div >< p plaque formation lysis plaques host growth bacterial host mathematical model different ways cell morphology cell filamentation host ’ phage therapy phage predation phage infection called phage successive cycles strongly influenced solid media single point research focuses propagation matrix pas ), morphological changes mg1655 infection investigate pas enhanced adsorption efficient predation distinctive manifestation crucial importance compassionate treatments common practice combined administration coli </ circular thinning
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Míreanna comhchosúla

dCas9/sgRNA-driven morphological changes in bacteria produce larger lysis plaques.
de réir: Julián Bulssico (16979655)
Foilsithe / Cruthaithe: (2025)

Lysis plaques produced by phages T5 and T7 on <i>E. coli</i> MG1655 are enlarged in the presence of sublethal doses of antibiotics.
de réir: Julián Bulssico (16979655)
Foilsithe / Cruthaithe: (2025)

Phage T5 and T7 plaque radii <i>vs</i> bacterial morphological changes.
de réir: Julián Bulssico (16979655)
Foilsithe / Cruthaithe: (2025)

Relative squared speeds of expanding plaques as a function of changes in morphological parameters of cell in mecillinam and ciprofloxacin treated cells.
de réir: Julián Bulssico (16979655)
Foilsithe / Cruthaithe: (2025)

Effects of dCas9-mediated morphological changes on key parameters influencing epidemic spread.
de réir: Julián Bulssico (16979655)
Foilsithe / Cruthaithe: (2025)

Morphological effects of sublethal antibiotics in E. coli MG1655.
de réir: Julián Bulssico (16979655)
Foilsithe / Cruthaithe: (2025)

Raw data and statistics.
de réir: Julián Bulssico (16979655)
Foilsithe / Cruthaithe: (2025)

Propagation profiles of phage T7 epidemics under PAS conditions.
de réir: Julián Bulssico (16979655)
Foilsithe / Cruthaithe: (2025)

Bacterial count in the presence of antibiotics that do not alter cell morphology.
de réir: Julián Bulssico (16979655)
Foilsithe / Cruthaithe: (2025)

Table 3_Susceptibility profile of clinical and food-associated Listeria monocytogenes strains to a commercial phage product using different test methods.xlsx
de réir: Christoph Brieske (22029293)
Foilsithe / Cruthaithe: (2025)

Table 2_Susceptibility profile of clinical and food-associated Listeria monocytogenes strains to a commercial phage product using different test methods.xlsx
de réir: Christoph Brieske (22029293)
Foilsithe / Cruthaithe: (2025)

Table 1_Susceptibility profile of clinical and food-associated Listeria monocytogenes strains to a commercial phage product using different test methods.xlsx
de réir: Christoph Brieske (22029293)
Foilsithe / Cruthaithe: (2025)

Image 1_Susceptibility profile of clinical and food-associated Listeria monocytogenes strains to a commercial phage product using different test methods.tiff
de réir: Christoph Brieske (22029293)
Foilsithe / Cruthaithe: (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.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

Genome alignment of the variants and ancestral <i>Mydovirus</i> H evidences its recombination with a sequence of unknown origin.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

Graphic representation of the recombination events in the <i>Sugarlandvirus</i> I and J variants.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

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

The host range and the composition of the phage community evolved during the experiment.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

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

Protein sequence alignment of mutated tail proteins potentially involved in host recognition or attachment.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

FUBAR test (Fast, Unconstrained Bayesian AppRoximation for Inferring Selection) results.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

Differences in the increment of titer over time between phage B and evolved variants K74_evo1 and K74_evo4.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

Annotation of the phages in the community and analysis of mutations detected during the evolution experiment.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

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

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

Average sequencing depth of the genome sequences of the phages included in the community at different passages and lines.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

Detection of putative double-stranded DNA potential prophages in the phage cocktail evolution experiment.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

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

Comparison of Poisson rates test comparing mutations per position in proteins with observed accumulation of mutations with mutations per position in the rest of the genome.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

Description of the isolated evolved phages.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

77 <i>Klebsiella</i> reference strains collection.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

Variable position frequency comparison between variant calling and phage variant isolation and evaluation of effects of mutation patterns on the efficacy of plating (EOP).
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

Evolved variants K74_evo1 and K74_evo4 of phage B and differences in the increment of titer over time.
de réir: Celia Ferriol-González (22693472)
Foilsithe / Cruthaithe: (2025)

Summary of phages isolated against TASP18 and TASP92 using plaque assay.
de réir: Assefa Asnakew Abebe (22305305)
Foilsithe / Cruthaithe: (2025)

Table 1_Hard to jump: host shifts appear unlikely in a T4-like phage evolved in the lab.xlsx
de réir: Yu Ning (588573)
Foilsithe / Cruthaithe: (2025)

Supplementary file 1_Hard to jump: host shifts appear unlikely in a T4-like phage evolved in the lab.docx
de réir: Yu Ning (588573)
Foilsithe / Cruthaithe: (2025)

Optimal multiplicity of infection of eight phages.
de réir: Assefa Asnakew Abebe (22305305)
Foilsithe / Cruthaithe: (2025)

Host range analysis result of selected eight phages.
de réir: Assefa Asnakew Abebe (22305305)
Foilsithe / Cruthaithe: (2025)

The titer of isolated phages.
de réir: Assefa Asnakew Abebe (22305305)
Foilsithe / Cruthaithe: (2025)

Summary of phages isolated against TASP18 and TASP92 using spot assay.
de réir: Assefa Asnakew Abebe (22305305)
Foilsithe / Cruthaithe: (2025)