Table 1.
Characterisation of the pyoverdine locus and prediction of the pyoverdine amino acid backbone for natural Pseudomonas isolates
| Community ID | Strain ID | Strain classification | Pyoverdine production (%)a | Number of genes | Predicted pyoverdine peptide sequenceb,c | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Regulator | Pyoverdine synthesis | Transport periplasma | Maturation periplasma | Secretion | Entire cluster | ||||||
| pvdS | pvdL pvdI pvdJ pvdD pvdH pvdA | pvdE | pvdQ pvdO pvdN pvdM pvdP | opmQ pvdR pvdT | |||||||
| soil a | s3a18 | Residual non-producer | 2.8 | 1 | 5 | 1 | 5 | 3 | 15 | Lys-Orn-Gly-Gly-Thr-Ser-Orn | ● |
| s3a10 | Stimulating producer | 127 | 1 | 5 | 1 | 5 | 3 | 15 | Ser-Orn-Gly-Gly-Thr-Gly-X | ■ | |
| s3a12 | Non-stimulating producer | 64 | 1 | 6 | 1 | 5 | 3 | 16 | Lys-Asp-Gly-Thr-Gly-Orn | ♦ | |
| soil b | s3b5 | Residual non-producer | 1.4 | 1 | 6 | 1 | 5 | 3 | 16 | Ser-Lys-X-Thr-Ser-Orn | □ |
| s3b6 | Stimulating producer | 20 | 1 | 5 | 1 | 5 | 3 | 15 | Lys-Orn-Gly-Gly-Thr-Ser-Orn | ● | |
| s3b2 | Non-stimulating producer | 42 | 1 | 7 | 1 | 5 | 3 | 17 | Gly-Orn-Gly-Gly-Ser-Gly-Asp-Thr | ||
| soil f | s3f7 | Residual non-producer | 2.0 | 1 | 6 | 1 | 5 | 3 | 16 | Ser-Lys-X-Thr-Ser-Orn | □ |
| s3f10 | Stimulating producer | 97 | 1 | 5 | 1 | 5 | 3 | 15 | Ser-Orn-Gly-Gly-Thr-Gly-X | ■ | |
| s3f19 | Non-stimulating producer | 120 | 1 | 7 | 1 | 5 | 3 | 17 | Asp-Lys-Asp-Ser-Thr-Gly-Thr-Lys-X | ||
| soil h | s3h17 | Complete non-producer | 0.02 | 1 | – | – | 1 | – | 2 | N/A | |
| s3h14 | Stimulating producer | 46 | 1 | 5 | 1 | 5 | 3 | 15 | Gly-Lys-Thr-Ser-X-Orn | ✧ | |
| s3h9 | Non-stimulating producer | 77 | 1 | 6 | 1 | 5 | 3 | 16 | Lys-Asp-Gly-Thr-Gly-Orn | ♦ | |
| pond A | 3A5 | Complete non-producer | 0.001 | 1 | 1 | 1 | 1 | – | 4 | N/A | |
| 3A18 | Stimulating producer | 139 | 1 | 7 | 1 | 5 | 3 | 17 | Lys-Asp-Thr-Thr-Gly-Asp-Ser | ||
| 3A7 | Non-stimulating producer | 90 | 1 | 5 | 1 | 5 | 3 | 15 | Gly-Lys-Thr-Ser-X-Orn-Thr-Thr | ✧ | |
| pond E | 3E20 | Complete non-producer | 0.01 | 1 | – | – | 1 | 3 | 5 | N/A | |
| 3E19 | Stimulating producer | 51 | 1 | 6 | 1 | 5 | 3 | 16 | Lys-Orn-Gly-Gln-Gly-Ser-Orn | ||
| 3E13 | Non-stimulating producer | 61 | 1 | 7 | 1 | 5 | 3 | 17 | Asp-Thr-Gly-Asp-Gln-Gln-Gly | ||
| pond F | 3F3 | Residual non-producer | 3.1 | 1 | 7 | 1 | 4 | 3 | 16 | Asp-Lys-Orn-Thr-Gly-Ser-Ser-Orn | |
| 3F6 | Stimulating producer | 63 | 1 | 6 | 1 | 5 | 3 | 16 | Lys-Asp-Gly Thr-Gly-Orn | ♦ | |
| 3F5 | Non-stimulating producer | 48 | 1 | 7 | 1 | 5 | 3 | 17 | Gly-X-X-Asp-X-Orn | ||
| pond H | 3H3 | Complete non-producer | 0.01 | 1 | 1 | 1 | 1 | 3 | 7 | N/A | |
| 3H7 | Stimulating producer | 72 | 1 | 6 | 1 | 5 | 3 | 16 | Lys-Asp-Gly-Thr-Gly-Orn | ♦ | |
| 3H9 | Non-stimulating producer | 108 | 1 | 6 | 1 | 5 | 3 | 16 | Ser-Lys-Thr-Ser-X-Orn-Thr-Thr-X | ||
aPyoverdine production (in percentage) was measured relative to the reference strains (Supplementary Table 1)
bX = unknown amino acid (no significant hit with prediction software)
cSymbols depict pyoverdines with identical peptide backbone composition