Table 5.
Selection of Genomic Regions or Genes of Interest Regarding the Bacterial Life-Cycle in the Xenorhabdus poinarii G6 (Xp_G6), X. doucetiae FRM16 (Xd), X. nematophila ATCC19061 (Xn), and X. bovienii SS2004 (Xb) Genomes
| Function | Product or Function | Gene or Locus |
|||
|---|---|---|---|---|---|
| Xn | Xb | Xd | Xp_G6 | ||
| T5SS (Tps) | XhlA/B | XNC1_4556-4555 | XBJ1_0258-0258 | XDD1_3768-3767 | XPG1_0219-0220 |
| Putative CDI | Absent | XBJ1_1975-79 | XDD1_1117-1119 | Absent | |
| Others | XNC1_3685-3689 | Absent | Absent | Absent | |
| XNC1_3564-3565 | |||||
| Hemolysin | XaxAB | XNC1_3766-3767 | XBJ1_1710-1711 | XDD1_0809-0810 | Absent |
| Insecticidal toxin | PirAB | XNC1_1143-1142 | Absent | XDD1_2939-2940 | XPG1_1629-1630 |
| Txp40 | XNC1_1129 | Absent | Absent | Absent | |
| Mcf2 | XNC1_2028 | Absent | XDD1_1049 (truncated) | Absent | |
| Mcf-like | XNC1_2265 | XBJ1_2410 | Absent | Absent | |
| Tc | 3 complete loci, 2 partial locia | 1 complete locus, 4 partial locia | Absent | Absent | |
| NRPS–PKS | PAX-peptide synthesis | XNC1_2781-2784 | XBJ1_2151-2155 | XDD1_2664-2669 | Absent |
| Unknown metabolite synthesis | XNC1_2037-2040 | XBJ1_1966-1968 | XDD1_2281-2289 | Absent | |
| Amino acid-related compounds catabolism | Choline catabolism and transport | XNC1_1244-1247 | XBJ1_3308-3305 | XDD1_1182-1185 | Absent |
| Arginine and amino-butyrate metabolism | XNC1_2270-2274 | XBJ1_0079-0085 | XDD1_1920-1927 | Absent | |
| Hydroxyphenylacetic acid catabolism | XNC1_0446-0449 | XBJ1_3600 | XDD1_0415 | Absent | |
| XNC1_0810-0823 | XBJ1_0867-0875 | XDD1_1012-1026 | Absent | ||
| XBJ1_3599-3560 (partial) | |||||
| Phenylalanine and phenylacetic acid catabolism | XNC1_3619-3621 | XBJ1_3555-3557 | XDD1_0655-0657 | Absent | |
| XNC1_4614-4627 | XBJ1_0117-0128 | XDD1_3917-3928 | Absent | ||
| Tyrosine catabolism | XNC1_2243-2245 | XBJ1_2348-2352 | XDD1_2132-2135 | Absent | |
| Regulators | Two-component system YehU/YehT | XNC1_0512-0513 | XBJ1_0375-0376 | XDD1_0487-0488 | Absent |
| Quorum sensing regulator LuxS | XNC1_1265 | XBJ1_3281 | XDD1_1203 | Absent | |
| Putative RcsA activator | XNC1_1652-1653 | XBJ1_1898 | XDD1_2386 | Absent | |
| Transcriptional repressor for phenylacetic acid degradation | XNC1_4631 | XBJ1_0116 | XDD1_0107 | Absent | |
| Entire TA systems (type IIb) | CcdAB | XNC1_0081-0082 | Absent | Absent | Absent |
| HipBA | XNC1_4231-4232 | Absent | XDD1_0152-0153 | Absent | |
| MazEF | XNC1_0471-0472 | XBJ1_0440-0442 | XDD1_0556-0557, | Absent | |
| XDD1_3836-3837 | |||||
| Doc–Phd | XNC1_0202-0203 | XBJ1_4379-4380 | XDD1_0111-0112 | Absent | |
| RelBE | XNC1_1940-1941 | XBJ1_3187-3188 | Absent | Absent | |
| VapBC | XNC1_0417-0418, | Absent | XDD1_0524-0525, | Absent | |
| XNC1_4632-4633 | XDD1_0577-0578 | ||||
Note.—Tps, two partner system; CDI, contact-dependent inhibitor.
aFor further description, see Chaston et al. (2011).
bPredicted after a RASTA analysis (Sevin and Barloy-Hubler 2007) and from selection of nine families described in Escherichia coli or Yersinia pestis (CcdA/CcdB, HicA/HicB, HigA/HigB, HipA/HipB, MazE/MazF, ParD/ParE, Phd/Doc, RelE/RelB, VapB/VapC).