Table 2.
SSH clones and targeted ORFs present in highly pathogenic strains (XaFL07-1, GPE PC73 and HVO082)
| XaFL07-1 SSH clone | GPE PC73 ORF | Protein size | Protein description/predicted Pfam domain or predicted function | Paralog (% identity in Aa) | Best Blast Hit with other xanthomonads (NCBI) |
|---|---|---|---|---|---|
| VI-G9 |
XALc_1622 |
540 Aa |
Hypothetical protein/Integral membrane sensory domain found in signaling proteins |
XALc_2416 (83%) |
No hit found |
| I-C4 |
XALc_2283 |
351 Aa |
Hypothetical protein/Cytochrome P450 superfamily (oxidoreductase) |
|
XVA NCPPB702: XcampvN_010100019130 with S:1228, E: 1e-167, I: 244/347 (70%) |
| I-C4 |
XALc_2284 |
35 Aa |
Hypothetical protein/Pseudogene |
|
No hit found |
| I-D2 |
XALc_2627 |
87 Aa |
Hypothetical protein/Phage |
XALc_2395 (99%) |
No hit found |
| I-D2 |
XALc_2628 |
168 Aa |
Hypothetical protein/Phage |
XALc_2396 (98%) |
No hit found |
| I-F8 |
XALc_1545 |
69 Aa |
Hypothetical protein/Phage |
|
No hit found |
| I-F8 |
XALc_1546 |
72 Aa |
Hypothetical protein/Phage |
|
No hit found |
| I-G2 |
XALc_2561 |
223 Aa |
Hypothetical protein/Unknown (located near ABC transporter genes) |
|
XOO MAFF 311018: XOO_1679 with S:1092, E: 4e-151, I: 209/223 (94%) |
| III-E3 |
XALc_0703 |
311 Aa |
ABC transporter |
|
No hit found |
| V-H6 |
XALc_0704 |
400 Aa |
Hypothetical protein/ABC transporter |
|
No hit found |
| III-H5 |
XALc_1631 |
254 Aa |
Hypothetical protein/Phage |
|
No hit found |
| IV-B5 |
XALc_1361 |
847 Aa |
Methyl-accepting chemotaxis protein |
|
XCR 756C: XCR_213 with S:2630, E: 0, I: 533/798 (67%) |
| IV-B12 |
XALc_1803 |
211 Aa |
Hypothetical protein/Phage |
|
XCV 85-10: XCV2218 with S:383, E:9e-44, I:96/199 (48%) |
| VI-A11 |
XALc_2887 |
224 Aa |
CRISPR-associated protein Cas5d |
|
XOO MAFF 311018: XOO_0797 with S:1041, E: 2e-143, I: 195/222 (88%) |
| VI-H8 |
XALc_2384 |
462 Aa |
Recombinase/Resolvase (Phage) |
XALc_2617 (97%) |
No hit found |
| II-H2 |
XALc_1232 |
415 Aa |
ABC transporter |
|
XOC BLS256: Xoryp_010100020185 with S:1998, E:0, I:388/415 (93%) |
| III-F5 |
XALc_1231 |
439 Aa |
ABC transporter |
|
XOC BLS256: Xoryp_010100020190 with S:2041:, E:0, I:397/439 (90%) |
| V-F1 |
XALc_1228 |
413 Aa |
Hypothetical protein/Unknown |
|
No hit found |
| V-F1 |
XALc_1229 |
272 Aa |
Hypothetical protein/Unknown |
|
XOC BLS256: Xoryp_20200 with S:1261, E:8e-175, I:240/273 (88%) |
| V-H8 |
XALc_1226 |
198 Aa |
Hypothetical protein/Unknown |
|
No hit found |
| VI-H11 | Intergenic Sequence | 2,117 bp | located between a tRNA (XALc_0254) and an entericidin gene (XALc_0255) |
XCV: X. campestris pv. vesicatoria; XOO: X. oryzae pv. oryzae; XCR: X. campestris pv. raphani; XOC: X. oryzae pv. oryzicola; XVA: X. campestris pv. vasculorum
bp: nucleotide base pair; Aa: amino acid; S: score; E: E value; I: % of identity between query sequence and subject sequence.