Extended Data Fig. 9: Expression of multidrug plasma membrane ABC transporters in auxotrophs and prototrophs for HLUM.
mRNA expression profiles for the ABC transporters PDR5, SNQ2, and YOR1 were obtained from RNASeq expression data of n = 3 exponentially grown cultures, of 16 strains (1 prototroph and 15 auxotrophs in all possible combinations of HLUM) at similar cell density (optical density at 600 nm (OD600) of 0.8), followed by mRNA sequencing5. Analysis was performed either by (top) grouping prototrophs and auxotrophs normalised mRNA expression levels (box plots represent median (50% quantile (middle line) and lower and upper quantiles (lower (25% quantile) and upper (75% quantile); statistical significance was determined using a one-sided Kruskal-Wallis rank sum test) or (bottom) by each background strain (bar plots represent mean ± SEM of 3 independent cultures per strain, dots refer to individual cultures normalised mRNA abundance; statistical significance was determined using a two-sided Wilcoxon Rank Sum test, precise p-values are available in Source Data for Extended Data Fig. S9). The raw data5 (gene-wise read counts for gene expression estimation) was then processed using ‘DEseq2’6 in R for normalization.
