Table 2 Accessory genes islands
From: Legionella pneumophila pangenome reveals strain-specific virulence factors
Island type | Genome | Details | Position | # of CDSs | Length | Transposase | GC % |
|---|---|---|---|---|---|---|---|
Resistance related islands (R) | |||||||
Alcoy | Contains several multi-drug related protein | 68252 - 87883 | 22 | 19632 | + | 3534 | |
Corby | 69153 - 88336 | 22 | 19184 | + | 35.30 | ||
Philadelphia | 68096 - 77398 | 9 | 9303 | + | 33.96 | ||
R1 | Paris | Antibiotic persistance related system HipB/HipA; Phage related proteins Xre, and multi-drug efflux pump | 66766 - 85124 | 21 | 18359 | + | 38.05 |
Lens | Methylase, prophage integrase, TraK homologous | 68898 - 83207 | 10 | 14310 | + | 36.77 | |
R2 | Lens | Stability system StbDE | 1755441 - 1767402 | 10 | 11962 | + | 40.83 |
Transport/secretion systems(TS) | |||||||
Alcoy | Cobalt/zinc/cadmium efflux transporter helABC; ArsR regulatory proteins | 1251900 - 1268281 | 16 | 16382 | + | 40.75 | |
TS1 | |||||||
Corby | Cobalt/zinc/cadmium efflux transporter helABC | 2781725 - 2832225 | 56 | 50500 | + | 39.40 | |
DNA transfer (DT) | |||||||
Alcoy | 181578 - 230836 | 61 | 49259 | - | 38.56 | ||
DT1 | tra and trb conjugal transfer proteins, Rac integrase roteins, htpX protease prophage regulatory protein alpA | ||||||
Corby | 181312 - 241161 | 63 | 59850 | - | 39.11 | ||
Alcoy | 609680 - 648761 | 40 | 39082 | - | 39.52 | ||
DT2 | Putative RNA helicase, two putative restrictases, tra and trb conjugal transfer proteins. | ||||||
Corby | 613277 - 656674 | 42 | 43398 | - | 39.25 | ||
Paris | Plasmid-like elements containing lvh, lvr | 183831 - 234043 | 45 | 50213 | - | 39.90 | |
DT3 | Philadelphia | 1353613 - 1400796 | 45 | 47184 | + | 37.47 | |
Lens | 172914 - 239494 | 64 | 66581 | - | 39.13 | ||
CRISPR systems (C) | |||||||
Lens | 3226572 - 3248046 | 16 | 21475 | - | 40.75 | ||
C1 | Really similar CRISPR system | ||||||
Alcoy | 1169086 - 1179252 | 6 | 10167 | - | 38.49 | ||
C2 | Paris | *Part of above P2 island | .. | *45 | .... | .... | .... |
Integrated phage related (PR) | |||||||
Alcoy | MviN virulence factor | 1292822 - 1329842 | 30 | 37021 | + | 36.14 | |
PR1 | Corby | 1278158 - 1324830 | 49 | 46673 | + | 36.23 | |
Philadelphia | 1167775 - 1185079 | 15 | 17305 | + | 37.33 | ||
PR2 | Philadelphia | Mainly transposases | 173401 - 183804 | 10 | 10404 | + | 35.14 |
Corby | 2493848 - 2532367 | 11 | 38520 | + | 38.11 | ||
PR3 | Ankyrine containing domain | ||||||
Alcoy | 2486005 - 2509743 | 6 | 23739 | + | 37.00 | ||
PR4 | Lens | Plasmid maintenance killer/antidote system | 1190582 - 1219661 | 30 | 29080 | + | 34.79 |
PR5 | Alcoy | Bacilysin system | 2756698 - 2784130 | 33 | 27433 | + | 36.78 |
PR6 | Philadelphia | Type IV secretion system | 2296937 - 2366483 | 64 | 69547 | + | 38.04 |
PR7 | Paris | Probable phage integration | 2408503 - 2419758 | 16 | 11256 | - | 36.62 |
Not well defined (ND) | |||||||
ND1 | Paris | Cytochrome o | 325750 - 334842 | 10 | 9093 | - | 38.77 |
ND2 | Paris | Carbon storage regulator | 1192799 - 1199183 | 10 | 6385 | - | 36.76 |
ND3 | Paris | Nickel/Cobalt type II transport systems | 1353408 - 1356362 | 6 | 2955 | - | 39.63 |
ND4 | Philadelphia | No clear role | 1439890 - 1450778 | 10 | 10889 | + | 35.17 |
ND5 | Philadelphia | Mainly transposases and phages integrases | 2892417 - 2904871 | 16 | 12455 | + | 34.97 |
ND6 | Corby | No clear role | 1182245 - 1189318 | 9 | 7074 | - | 36.78 |
ND7 | Lens | Incomplete HipA/HipB system | 2605322 - 2617191 | 12 | 11870 | - | 34.77 |
ND8 | Paris | No clear role | 1733202 - 1746135 | 7 | 12934 | + | 38.09 |
ND9 | Paris | No clear role | 2654264 - 2661604 | 9 | 7341 | + | 37.57 |
ND10 | Paris | No clear role | 2725059 - 2776774 | 61 | 51716 | + | 37 |
Alcoy | 3003085 - 3015471 | 28 | 12387 | + | 37.15 | ||
ND11 | Mainly transposases | ||||||
Corby | 3443118 - 3451379 | 14 | 8262 | + | 35.00 | ||
ND12 | Lens | No clear role | 2824095 - 2849378 | 16 | 25284 | - | 36.77 |
ND13 | Corby | No clear role | 2833804 - 2842585 | 10 | 8782 | + | 37.42 |