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Data and code for: Stochastic bacterial population dynamics restrict the establishment of antibiotic resistance from single cells

Citation

Alexander, Helen K.; MacLean, R. Craig (2020), Data and code for: Stochastic bacterial population dynamics restrict the establishment of antibiotic resistance from single cells, Dryad, Dataset, https://doi.org/10.5061/dryad.12jm63xtb

Abstract

This dataset contains experimental data and custom R code for likelihood-based model-fitting associated with the manuscript "Stochastic bacterial population dynamics restrict the establishment of antibiotic resistance from single cells". In particular, we estimate the per-cell establishment probability (i.e. probability that a single cell gives rise to a large population) of a resistant strain, in the presence of antibiotics at concentrations below its standard minimum inhibitory concentration. The experiments are conducted here with Pseudomonas aeruginosa, while the model and methods can be applied more generally.

Methods

This dataset contains

  • experimental data
  • R code

associated with the manuscript: "Stochastic bacterial population dynamics restrict the establishment of antibiotic resistance from single cells". Please refer to the manuscript and its Supplementary Text for detailed methods.

Usage Notes

Please refer to the files

  • README-seeding.txt for a description of experimental data and R code associated with "seeding" experiments and model fitting to estimate per-cell establishment probability
  • README-other.txt for a description of other experimental data

Funding

Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung, Award: P2EZP3_165188

Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung, Award: P300PA_177789

Wellcome Trust, Award: 106918/Z/15/Z

Royal Society, Award: URF\R1\191269