TABLE 3.
Allelic assignments of NI1, NI38, and 4P1S2 type III secretion system genes relative to those of the X. perforans reference strain 91-118 and the X. euvesicatoria reference strain 85-10a
| Secretion system geneb | Allele type |
|||
|---|---|---|---|---|
| NI1 | NI38 | 4P1S2 | X. axonopodis pv. allii | |
| Hrp genes | ||||
| hrpA | X. perforans | X. euvesicatoria | Unique | Unique |
| hrpB1 | Identical | Identical | Unique | Unique |
| hrpB2 | Identical | Identical | Identical | Unique |
| hrpB4 | X. perforans | X. perforans | X. perforans | Unique |
| hrpB5 | Unique | Identical | Identical | Unique |
| hrpB7 | Identical | Identical | Identical | Unique |
| hrpD6 | X. perforans | X. perforans | X. perforans | Unique |
| hrpE | Unique | Unique | X. euvesicatoria | Unique |
| hrpF | X. perforans | X. euvesicatoria | X. perforans | Unique |
| hrpG | X. perforans | X. euvesicatoria | Unique | X. perforans |
| hrpX | X. perforans | X. euvesicatoria | Unique | Unique |
| Hrc genes | ||||
| hrcA | X. perforans | X. euvesicatoria | X. perforans | Unique |
| hrcC | X. perforans | Unique | X. perforans | X. perforans |
| hrcT | Identical | Identical | Identical | Identical |
| hrcN | X. perforans | Unique | NI38 type | Unique |
| yscJ (hrcJ) | Identical | Identical | Unique | Unique |
| hrcU | Identical | Identical | Identical | Unique |
| hrcV | X. perforans | Unique | Unique | Unique |
| yscQ (hrcQ) | Unique | X. euvesicatoria | NI1 type | Unique |
| hrcR | X. perforans | X. euvesicatoria | X. euvesicatoria | Unique |
| hrcS | X. perforans | X. euvesicatoria | X. euvesicatoria | Unique |
| hrcD | X. perforans | X. euvesicatoria | X. euvesicatoria | Unique |
| Hpa genes | ||||
| hpa1 | X. perforans | X. perforans | X. perforans | Unique |
| hpa2 | X. perforans | X. perforans | X. perforans | Unique |
| hpaA | X. perforans | X. euvesicatoria | X. euvesicatoria | Unique |
| hpaB | X. perforans | X. euvesicatoria | X. euvesicatoria | X. perforans |
| hpaG | X. perforans | X. euvesicatoria | Unique | Unique |
| hpaP | X. perforans | Unique | X. perforans | Unique |
Allele types are based on nucleotide sequence identity. “Identical” indicates that the X. perforans and X. euvesicatoria alleles are identical to each other and thus cannot be distinguished. “Unique” indicates alleles not found in the reference strains. Allelic assignments based on amino acid sequence identity are shown in Table S3 in the supplemental material, because we observed both synonymous and amino acid replacement substitutions.
Hrp genes, hypersensitivity, resistance, and pathogenicity genes; Hrc genes, hypersensitivity, resistance, and conserved genes; Hpa genes, Hrp-associated genes.