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1. S8 Fig. Viability of R. solanacearum cells in soil microcosms

2. S6 Fig. Expression of all stress response and the type 3 secretion system (T3SS) and type 3 effector gene groups

3. S1 Fig. Experimental set-up and differentially expressed genes (DEGs)

4. S5 Fig. Induction of nitrogen metabolism genes in soil

5. S7 Fig. Expression of key genes associated with oxidative stress in soil and water at 3 dpi

6. S2 Fig. GO and KEGG enrichment analyses of the environmental conditions

7. S3 Fig. Time-course expression of the PhrpB::Lux reporter in strains disrupted for the different T3SS regulatory genes after resuspension in water

8. S4 Fig. Induction of the type 3 secretion system (T3SS) by basic pH in all natural water sources tested

9. S6 Table. Bacterial strains, plasmids, and oligonucleotides used in this work

10. S1 Dataset. DEGs in the two environmental conditions (Soil and Water) and in the three in planta conditions (Apoplast, Early xyem and Late xylem) compared to the reference rich B medium (phi)

11. S3 Table. List of genes correspoding to the intersections shown in the UpsetR plots (Fig 1B and 1D)

12. S1 Table. List of waters used in this work

13. S2 Table. Chemical analysis of the natural soil used in the study

14. S5 Table. Output tables of the KEGG and GO enrichment analysis conducted on general and exclusive up- and downregulated DEGs from water and soil conditions

15. S4 Table. TAG enrichment analysis summary

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