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A mutation in flhDC, the master regulator of the flagellar regulon had no effect on competitive fitness within red ripe tomatoes (Table 2).
However, deletion of yihT or of the entire yihT-ompL region did not reduce competitive fitness of the strain in red ripe tomatoes (Table 2).
Deletion of the entire virulence plasmid pSLT had no effect on the competitive fitness of Salmonella within red ripe tomatoes (Table 2).
A set of other genes including 4-coumarate--CoA ligase 1, peroxisomal-coenzyme A synthetase involved in the formation of aromatic volatiles were also up-regulated in ripe fruit (Table 2 and Additional file 6).
In young berries, 2,885 of the 23,720 investigated transcripts were specifically overexpressed relative to all other time-points, while 1,047 were specifically up-regulated in ripe berries (Table 3).
The transcript encoding the final enzyme of the DXP pathway, hydroxymethylbutenyl diphosphate reductase (XM_002284623.2) was in cluster 7 and therefore up-regulated at veraison and in ripe berries (Table 7).
With this in mind, we also generated data on the number of transcripts that are specifically up-regulated at both the time-points taken around veraison (E-L 35 and E-L 36), compared with their expression level in young or ripe berries (Table 3 – 'veraison').
The transcript Cla005404 reached the peak of expression at the pink stage whereas the transcript Cla009779 peaked at the white-pink stage and then slightly declined at the pink and red-ripe stages (Table 2; Figure 7).
Our results showed that total protein concentrations dropped at véraison, compared to the protein levels extracted from cultures that originated from the green and ripe berry stages (Table 2).
