TABLE 2.
Selection of functions and number of corresponding genes impacting rice colonization efficiencies when mutateda
| Function | No. of genes |
|||
|---|---|---|---|---|
|
B. vietnamiensis
|
P. kururiensis
|
|||
| Depleted | Enriched | Depleted | Enriched | |
| Motility | 35 | 35 | ||
| Chemotaxis | 4 | 5 | 9 | 1 |
| Cobalamin synthesis (B12) | 1 | 8 | 15 | |
| Thiamine synthesis (B1) | 4 | 5 | ||
| Biotin synthesis (B7) | 5 | |||
| Potassium uptake | 5 | 5 | ||
| Ribose metabolism | 5 | |||
| Entner-Doudoroff pathway | 1 | 2 | ||
| Aromatic compound metabolism | 5 | |||
| c-di-GMP cycling | 1 | 7 | 1 | |
| Putrescine metabolism | 3 | 1 | ||
| Putrescine uptake | 5 | |||
| Cellulose synthase | 5 | |||
| Cell wall integrity | 5 | 10 | ||
| Peptidoglycan synthesis | 3 | |||
| Lytic transglycolases | 4 | 1 | ||
| Tol-Pal system | 5 | 3 | ||
| Hopanoid synthesis | 7 | 1 | ||
| O-antigen synthesis | 2 | |||
| Osmoprotection | 2 | 1 | ||
| DNA repair | 9 | 9 | ||
| Flp/Tad pilus | 12 | |||
| Arginine biosynthesis | 5 | 4 | ||
| Histidine biosynthesis | 9 | 9 | ||
| Isoleucine biosynthesis | 6 | 4 | ||
| Leucine biosynthesis | 3 | 4 | ||
| Lysine biosynthesis | 1 | |||
| Methionine biosynthesis | 3 | 5 | ||
| Proline biosynthesis | 2 | 2 | ||
| Serine biosynthesis | 2 | 2 | ||
| Tryptophan biosynthesis | 6 | 6 | ||
| Purine metabolism | 9 | 1 | 1 | |
| Pyrimidine metabolism | 5 | 6 | ||
| Queuosine synthesis | 6 | 1 | ||
| Quorum sensing | 2 | |||
| T2SS | 9 | 8 | ||
| Autotransporter assistance | 2 | |||
| Prophage | 22 | |||
a
A detailed list of genes is provided in Table S3. Pathways in bold are the three pathways for which new insertion mutants were produced to confirm implication in root colonization.