Raw (optical density) and processed (growthcurver) data for the host range of Pseudomonas syringae phages

Link to publication : https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1013428 Short summary: Phages, virus that infect bacteria, play important roles in shaping microbial communities. In agricultural systems, they are often viewed as potential biocontrol agents, but understanding their fundamental interactions with bacteria also helps us better characterise the plant microbiome and its applications. In our study, we examined how phages (n = 23) isolated from diseased plants interact with bacteria (n = 44) collected from diseased and healthy plants, and surrounding environments. Although we expected phages to preferentially infect bacteria from similar environments, we found that many phages infected bacterial strains regardless of their source, suggesting weak ecological barriers in this system. We also explored the contribution to bacterial resistance or sensitivity to phage infection by identifying bacterial defense systems and prophages. Overall, our work provides new insights into how phage–bacterium interactions evolve and function in plant-associated ecosystems. Contents of Data Files: raw_data_hostrange_Feltin25.csv Phage host range was assessed in liquid culture by monitoring phage-induced bacterial growth reduction. Optical density (OD) was measured every 5 minutes for 48h in 96-well plates. This file contains the raw OD values for each well with metadata: Phage, bacterial strain, (biological) replicate Each plate corresponds to a single plate Media_ctrl: negative control (culture medium only) Bacteria_ctrl: bacterial internal control (P. syringae strain P1.01.01B03) Phage_Bact_ctrl: phage internal control (phage Ghuch01 on P1.01.01B03), for which complete inhibition is expected cleaned_data_Feltin25.csv Each plate was processed using the growthcurver R package, providing growth-curve metrics including the empirical area under the curve (auce). This file also includes: Percent_inhibition (percentage of bacterial growth inhibition calculated from Mean_Bacteria_auce and sd_Bacteria_auce) Effect_probability (phage impact on bacterial growth probability) Significant_effect_inhibition and Significant_effect_stimulation (significance of inhibition defined as Effect_probability < 0.05; significance of stimulation defined as Effect_probability > 0.95; stimulation results shown in S10 Fig) Bacteria_R_S_inhibition, indicating the overall sensitivy or resistance of each bacteria to each phage based on the three biological replicates