Table 1. Description of HGT-inherited regions in PtVFX/2014.
| Region | Estimated length (Kbp) | Genome location |
Presence of Dot/Icm effectors coding genesc |
Relevant genes includeda,d | ||
|---|---|---|---|---|---|---|
| lociPhiladelphia-1 straina | loci PtVFX/2014b | Philadelphia-1a | PtVFX/2014b | |||
| A | 113 | lpg0831-lpg0723 | PtVFX2014_03240-03730 | lpg0733 | PtVFX2014_03780 | LPS biosynthesis loci (lpg0748-lpg0779)e (VFDB; 39); lpg0791/mip40; The iron assimilation- and virulence-associated lpg0746/iraAB locus (VFDB37;); lpg0742/ldsA38 |
| B | 21 | lpg1025(yegE)-lpg0986 | PtVFX2014_08445-08505 | — | — | Genes potentially associated with resistance to antibiotics and toxic compounds |
| C | 25 | lpg1640-lpg1619(ftsl4) | PtVFX2014_04280-04395 | lpg1639; lpg1625; lpg1621 | PtVFX2014_04285; PtVFX2014_04365; PtVFX2014_04385 | MecI family transcriptional regulator associated with β-lactams resistance (lpg1620) |
| D | 8 | lpg1794-lpg1800(recX) | PtVFX2014_11245-11275 | lpg1798 | PtVFX2014_11260 | Transcriptional regulator LysR (lpg1796); Regulatory protein RecX (lpg1800). |
| E | 33 | lpg1817-lpg1845(vacJ) | PtVFX2014_11360-11500 | lpg1822; lpg1836 | PtVFX2014_11385; PtVFX2014_11455 | lpg1845/vacJ: encodes a lipoprotein associated with peptidoglycan stabilization (potential virulence factor in cell to cell migration36); lpg1818/msbA: encodes the Lipid A export ATP-binding/permease protein MsbA41 |
| F | 20 | lpg2282(asnS)-lpg2262(ackA2) | PtVFX2014_01325-01425 | lpg2271 | PtVFX2014_01380 | — |
| G | 34 | lpg2462-lpg2426(mdcA) | PtVFX2014_00340-00520 | lpg2461; lpg2456; lpg2452; lpg2444; lpg2443; lpg2434; lpg2433 | PtVFX2014_00345; PtVFX2014_00370; PtVFX2014_00395; PtVFX2014_00425; PtVFX2014_00430; PtVFX2014_00480; PtVFX2014_00485 | lpg2438: encodes a florfenicol efflux pump |
| H | 33 | lpg2815-lpg2842(phoH) | PtVFX2014_14890-15010 | lpg2815; lpg2826; lpg2828; lpg2832 | PtVFX2014_14890; PtVFX2014_14945; PtVFX2014_14955; PtVFX2014_14960 | lpg2839/smpB (gene likely essential for viability of L. pneumophila42); lpg2825: gene associated with cold shock; lpg2841: putative antibiotic resistance-associated gene. |
aLoci designations are based on the Philadelphia-1 strain genome annotation (GenBank accession number AE017354).
bLoci designations are based on the PtVFX/2014 strain genome annotation (GenBank accession number LORH00000000) (this study).
cPresence/absence analysis based on 303 known Dot/Icm substrates coding genes that were recently gathered in the literature for six sequenced L. pneumophila strains (Philadelphia-1, 2300/99 Alcoy, Corby, Paris, Lens and 130b).
dBased on specific literature and/or on the Virulence Factors Database (VFDB) (http://www.mgc.ac.cn/VFs/).
eCorrespond to the loci PtVFX2014_03470-03605. The genes lpg0778 and lpg0675 are absent in the PtVFX/2014 strain.