Fig. 3

RNA sequencing data for ΔthrA and ΔserB experiments support isozyme predictions and mutation analysis. Volcano plots display log₂(fold change) on the x-axis and -log₁₀(p-adjusted value) on the y-axis for RNA sequencing data acquired for ΔthrA and ΔserB experiments. The log₂(fold change) and p-adjusted value data was acquired comparing the experimental condition expression data (biological duplicate replicates) to wild type BW25113 expression data (biological duplicate replicates). Each dot in the plots corresponds to the differential expression data of a gene. Panels A. and B. correspond to the data for ΔthrA experiments and panels c and d correspond to the data for ΔserB experiments. The vertical dashed lines in each plot corresponds to the 2X fold change line in either direction (log₂(fold change) = 1, -1) and the horizontal dashed line corresponds to the 0.05 p-adjusted value line (-log₁₀(p-adjusted value) = 1.3). Highlighted in red in panels a and b are the metL and metB genes, which are expressed in the same operon. Of interest for the thrA experiments was the up-regulation of the predicted isozyme, metL. Highlighted in red in panels c and d are his operon genes that were up-regulated in both ΔserB experiments. Of particular interest was hisB expression, the predicted isozyme for serB