Figure EV4. Growth deficiency of Δfis Δhfq cells.

WT, MDS42, Δfis, and MDS42 Δfis cells containing a temperature sensitive plasmid with hfq had their genomic copy of hfq deleted. Cells were grown in a permissive temperature (30°C), and then shifted to a non‐permissive temperature for plasmid replication (42°C), thus removing hfq as the plasmid is dropped. The log₁₀ fold change in CFU is displayed. Δfis cells were unable to grow with the loss of the temperature sensitive hfq plasmid, however, upon deletion of mobile elements and prophages from the genome (MDS42 strain background), viability was restored. Data show fitted values plus 95% credible intervals for a Bayesian analysis, in which the plate counts themselves were treated as Poisson random variables, with rate parameters arising from an initial cell concentration in cells/ml (at the permissive temperature) and then a post‐treatment scaling factor applied to that initial concentration. Both parameters were fitted on a log10 scale, with a Uniform (0,15) prior on the initial cell concentrations and Uniform (−10,10) prior on the treatment effect. The treatment effect parameter is plotted as “log10 growth”, reflecting the observed growth at 42°C. Fits were based on three biological replicates for each genotype and were performed using pymc3 (Salvatier et al, 2016).