Table 3.
Predicted T4 effectors in various genomes of α- and γ-proteobacteria
| Genome | ORFa | Known T4Es (%)b | Predicted T4Es (%)c | Predicted TP (%)d | Mean GC (%)e | High GC (%)f | Low GC (%)g | GDRs (%)h | IB (%)i | GSRs (%)j |
|---|---|---|---|---|---|---|---|---|---|---|
| Ehrlichia ruminantium, strain Gardel | 950 | NA | 22 (2,32) | NA | 28 | 68 | 32 | 23 | 36 | 41 |
| Anaplasma marginale | 963 | 4 (0,42) | 26 (2,70) | 100 | 50 | 62 | 38 | 15 | 46 | 38 |
| Brucella abortus chr I | 2000 | 3 (0,15) | 53 (2,65) | 100 | 57 | 62 | 38 | 25 | 40 | 34 |
| Brucella abortus chr II | 1034 | 1 (0,10) | 17 (1,64) | 100 | 57 | 41 | 59 | 6 | 65 | 29 |
| Coxiella burnetii | 2085 | 43 (2,06) | 126 (6,04) | 77 | 43 | 50 | 50 | 15 | 41 | 44 |
| Coxiella burnetii pl | 36 | 1 (2,78) | 4 (11,11) | 100 | 39 | 50 | 50 | 25 | 25 | 50 |
| Legionella pneumophila | 2943 | 275 (9,34) | 311 (10,57) | 81 | 38 | 40 | 60 | 8 | 40 | 53 |
aNumber of ORFs in the genome.
bNumber and proportion of known T4 effectors in the genome.
cNumber and proportion of predicted T4 effectors.
dProportion of true positives in S4TE prediction.
eMean G + C content of the genome.
fProportion of predicted T4 effectors in genomic regions with high G + C content.
gProportion of predicted T4 effectors in genomic regions with low G + C content.
hProportion of predicted T4 effectors in gene-dense regions.
iProportion of predicted T4 effectors in ‘in between’ regions.
jProportion of predicted T4 effectors in gene-sparse regions.
NA, not applicable; TP, true positives; GDRs, gene dense regions; GSRs, gene sparse regions; T4Es, type IV effectors.