Table 1.
Differentially up-regulated genes from an RNA-seq experiment comparing X. gardneri- and XgΔavrHah1-infected tomato
| Soly Gene ID | EBE score/bp from ATG | Mean RPKM | Predicted protein function | |
| X. gardneri | XgΔavrHah1 | |||
| Solyc02g070210 | 15.01/84 | 36.11 | 0.06 | Phosphatidylinositol transferase |
| Solyc02g084010 | 99.00 | 0.14 | Auxin-induced SAUR-like | |
| Solyc02g089350 | 997.81 | 0.78 | Gibberellin regulated | |
| Solyc03g033590 | 55.85 | 0.14 | Auxin-induced SAUR-like | |
| Solyc03g097820 | 3.96/108 | 1,267.09 | 0.75 | bHLH Transcription Factor |
| Solyc03g114430 | 133.86 | 0.27 | Unknown Protein | |
| Solyc03g116060 | 155.13 | 0.14 | Gibberellin-regulated | |
| Solyc04g017720 | 550.74 | 0.89 | Gibberellin regulated | |
| Solyc04g079700 | 13.26/173 | 16.26 | 0.07 | WD-40 repeat family |
| Solyc04g079860 | 39.32 | 0.13 | Glycosyltransferase family GT8 | |
| Solyc04g081870 | 442.81 | 1.38 | Expansin | |
| Solyc05g014000 | 206.02 | 0.25 | Pectate lyase | |
| Solyc06g067910 | 95.26 | 0.28 | Unknown function DUF642 | |
| Solyc06g068360 | 99.04 | 0.4 | Ethylene-resp. transcription factor 7 | |
| Solyc06g071930 | 461.79 | 2.81 | Unknown Protein | |
| Solyc06g072520 | 9.21/139 | 568.68 | 0.38 | bHLH Transcription Factor |
| Solyc07g006310 | 129.78 | 0.24 | Transcription factor | |
| Solyc08g062450 | 8.2/105 | 14.70 | 0.14 | class II heat shock |
| Solyc08g068720 | 13.74/220 | 196.13 | 0.01 | Tyramine hydroxycinnamoyl transferase |
| Solyc08g079780 | 13.96 | 0.08 | Blue copper protein | |
| Solyc11g011210 | 1,436.40 | 8.86 | Gibberellin regulated | |
| Solyc11g019910 | 89.27 | 0.22 | Pectinesterase | |
| Solyc11g067180 | 94.81 | 0.15 | Fatty acyl CoA reductase | |
| Solyc12g009840 | 156.10 | 0.64 | Pyrophosphate-energized proton pump | |
Mean reads per kilobase of transcript per million mapped reads (RPKM) of three biological replicates at 48 hpi are displayed. Genes are organized by Soly gene ID. Genes with predicted promoter EBEs for AvrHah1 are indicated with the score (best possible is 3.76) and distance from the start codon.