Table 1.
Performed cultivations and key process parameters.
Figure 1.
Batch growth and acetate data.
Bacterial growth (cell dry mass; CDM) and acetate production in the supernatant of the three replicate cultivations of HMS174 (A), RV308 (B) and BL21 (C) showing the mean values including standard error of the mean.
Figure 2.
Growth rates and glucose trend.
Calculated growth rates of the three E. coli hosts (A) and course of glucose consumed by the three different strains (B) during the batch cultivations.
Table 2.
Carbon balance.
Table 3.
HPLC analysis of nucleotides.
Figure 3.
The venn diagram shows a summary of the log-fold changes of batch transcription data, which revealed 347 genes as differentially expressed in all three strains. Overlaps represent differentially expressed genes that belong to two or all three data sets and not taking into account the direction of regulation (up or down). 3535 genes did not fulfill the filtering criteria of a log-fold change of one and were excluded from the microarray data analysis.
Table 4.
GenProtEC classification.
Figure 4.
Differential responses: iron acquisition.
Log-fold changes of all three strains for the GenProtEC term “iron acquisition.”
Figure 5.
Differential responses: motility.
Log-fold changes of all three hosts for the GenProtEC term “motility.”
Figure 6.
Differential responses: fli-operon of K–12 strains.
Log-fold changes of HMS174 and RV308 for all genes of the fli-operon. These genes are absent on the BL21 genome because of an insertion element and consequently not in the commonset. Therefore, no BL21 mRNA expression data were available.
Figure 7.
Motility test of the three hosts.
Semi-synthetic agar plate (A, glucose present) with colonies of RV308 (top), HMS174 (bottom left), and BL21 (bottom right). None of the three strains showed swarming on the plate. Lysogeny broth agar plate (B, no glucose present) with colonies of RV308 (top), HMS174 (bottom left), and BL21 (bottom right). Only RV308 showed motile behavior by swarming on the plate.
Figure 8.
Differential responses: Glucose transport and acetate metabolism.
Log-fold changes of all three strains for selected genes involved in carbon use, the TCA cycle, glyoxylate shunt, and acetate catabolism.
Table 5.
Altered proteins.
Figure 9.
The 2D-gel map of cellular proteins of the E. coli mixture separated on 4–7 and 6–11 immobilized pH gradient (IPG) strips followed by 12.5% w/v sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE) and visualized by fluorescence labeling. Identified proteins are marked with numbers and listed in Table 6.
Table 6.
Comparison of proteome and transcriptome data.