Figure 1

Characterization of the fermentation time series samples. A. Major biochemical parameters of the fermentation run. The figure shows the increase in biomass (brown), phosphate depletion (pink), the decrease of glucose (yellow) and glutamate (green) levels, as well as the production of the antibiotics undecylprodigiosin (red), actinorhodin (light blue), and total blue pigment (dark blue). Continuous measurements of CO₂ production are indicated by the thin red line. The sampling intervals for the gene expression measurements are indicated at the top. B. Hierarchical clustering of the 32 samples along the time course. Each leaf of the tree corresponds to one sample and the labels indicate the time (in hours) after inoculation at which the sample was harvested. The clustering of the 32 samples is based on the expression profiles of 322 transcripts with highest regularized variance. A neighbor joining tree was produced from the pairwise Euclidean distances between the expression profiles of all samples.