Data from: Benefit of transferred mutations is better predicted by the fitness of recipients than by their ecological or genetic relatedness

Wang Y, Diaz Arena C, Stoebel DM, Flynn KM, Knapp E, Dillon MM, Wunsche A, Hatcher PJ, Moore FB-, Cooper VS, Cooper TF

Date Published: April 22, 2016

DOI: http://dx.doi.org/10.5061/dryad.t60n5

 

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Title 1_Data_integration
Downloaded 6 times
Description R Script to load input files and collate into a single matched data frame containing fitness, growth rate, and genetic and biolog distance data
Download 1_Data_integration.R (9.991 Kb)
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Title 2_mutation_effect_ANOVA
Downloaded 10 times
Description R Script to perform ANOVA to: (i) examine variation in effect of each mutations over strains, (ii) examine variation in average effect of mutations per strain, and (iii) determine average effect of each mutation
Download 2_mutation_effect_ANOVA.R (10.82 Kb)
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Title 2a_Recipient strains on Broad phylo
Downloaded 8 times
Description R Script to identify engineered strains in context of broader E. coli phylogeny
Download 2a_Recipient strains on Broad phylo.R (7.409 Kb)
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Title 3_PLSregression_&_correlations
Downloaded 14 times
Description Script to perform ANOVA testing for mutation effect variation over different recipient strains and to perform partial least squares (PLS) regression and plot contribution of independent variables to each component
Download 3_PLSregression_&_correlations.R (19.59 Kb)
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Title 4_Phylo_contrasts
Downloaded 40 times
Description R script to perform phylogenetic regression and calculate statistics of phylogenetic signal
Download 4_Phylo_contrasts.R (11.84 Kb)
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Title biolog
Downloaded 4 times
Description Biolog profiles of engineered strains
Download biolog.txt (21.34 Kb)
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Title fitness_estimates
Downloaded 4 times
Description Fitness estimates of engineered strains
Download fitness_estimates.txt (21.3 Kb)
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Title growth_rates
Downloaded 4 times
Description Growth rate estimates of parent strains
Download growth_rates.txt (9.469 Kb)
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When using this data, please cite the original publication:

Wang Y, Diaz Arena C, Stoebel DM, Flynn KM, Knapp E, Dillon MM, Wunsche A, Hatcher PJ, Moore FB-, Cooper VS, Cooper TF (2016) Benefit of transferred mutations is better predicted by the fitness of recipients than by their ecological or genetic relatedness. Proceedings of the National Academy of Sciences of the United States of America, online in advance of print. http://dx.doi.org/10.1073/pnas.1524988113

Additionally, please cite the Dryad data package:

Wang Y, Diaz Arena C, Stoebel DM, Flynn KM, Knapp E, Dillon MM, Wunsche A, Hatcher PJ, Moore FB-, Cooper VS, Cooper TF (2016) Data from: Benefit of transferred mutations is better predicted by the fitness of recipients than by their ecological or genetic relatedness. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.t60n5
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