Table 2.
General Features of the Campylobacter lari Group Genomes
| C. lari subsp. lari | C. lari subsp. concheus | UPTC NCTC 11845 | UPTC CCUG 22395 | UPTC RM16701 | UPTC RM16712 | C. subantarcticus LMG 24374 | C. subantarcticus LMG 24377 | Campylobacter spp. RM16704 | C. peloridis | C. volucris | C. insulaenigrae | ||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| General features | Chromosome | ||||||||||||
| Size (kb) | 1,525.46 | 1,502.10 | 1,791.51 | 1,523.03 | 1,516.46 | 1,565.01 | 1,782.54 | 1,853.00 | 1,557.54 | 1,711.37 | 1,517.95 | 1,465.08 | |
| % G+C content | 29.70 | 29.73 | 29.36 | 29.86 | 29.90 | 29.74 | 29.94 | 29.75 | 28.47 | 28.51 | 28.57 | 28.19 | |
| CDS numbersa | 1,495 | 1,451 | 1,702 | 1,481 | 1,475 | 1,507 | 1,675 | 1,770 | 1,490 | 1,591 | 1,478 | 1,440 | |
| Assigned function (% CDS) | 836 (56) | 821 (57) | 837 (49) | 835 (56) | 822 (56) | 834 (55) | 840 (50) | 832 (47) | 817 (55) | 827 (52) | 830 (56) | 812 (56) | |
| Pseudogenes | 18 | 20 | 21 | 15 | 9 | 20 | 51 | 56 | 30 | 19 | 19 | 22 | |
| General function (% CDS) | 373 (25) | 378 (26) | 426 (25) | 390 (26) | 387 (26) | 382 (25) | 458 (27) | 485 (27) | 388 (26) | 404 (25) | 383 (26) | 360 (25) | |
| Hypothetical (% CDS) | 286 (19) | 252 (17) | 439 (26) | 256 (17) | 266 (18) | 291 (19) | 377 (23) | 453 (26) | 285 (19) | 360 (23) | 265 (18) | 268 (19) | |
| Prophage/genetic islands | 1 | 1 | 2 | 2 | 1 | 2 | 2 | 3 | 0 | 2 | 1 | 1 | |
| Ribosomal RNA operons | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | |
| CRISPR | N | N | Y | Yb | N | N | Y | N | Y | Y | N | N | |
| G:C tracts ≥8 nt (# HV) | 15 (15) | 15 (14) | 23 (22) | 10 (10) | 14 (14) | 18 (16) | 50 (46) | 44 (43) | 41 (39) | 26 (26) | 17 (17) | 27 (23) | |
| Plasmids (size kb) | 46.2 | N/A | N/A | N/A | N/A | N/A | N/A | N/A | N/A | 47.8; 3.6 | N/A | N/A | |
| Gene classes | |||||||||||||
| Gene classes | Signal transduction | ||||||||||||
| Che/Mot proteins | 8 | 8 | 8 | 8 | 8 | 8 | 8 | 8 | 8 | 8 | 8 | 8 | |
| MCP | 12 | 11 | 14 | 14 | 14 | 11 | 10 | 10 | 9 | 13 | 9 | 8 | |
| 2CS response regulator | 6 | 6 | 6 | 6 | 5 | 6 | 6 | 6 | 6 | 6 | 6 | 4 | |
| 2CS histidine kinase | 6 | 6 | 6 | 6 | 5 | 6 | 6 | 6 | 6 | 6 | 6 | 4 | |
| Other | 7 | 7 | 7 | 7 | 8 | 6 | 7 | 6 | 6 | 6 | 7 | 6 | |
| R/M systems | |||||||||||||
| Type I (hsd) | 0 | 0 | 0 | 1 | 0 | 1 | 2 | 0 | 1 | 1 | 0 | 0 | |
| Type II/IIS | 2 | 1 | 1 | 1 | 2 | 2 | 2 | 3 | 2 | 3 | 4 | 3 | |
| Type III | 0 | 1 | 0 | 0 | 1 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | |
| Other (mcrBC) | 1 | 1 | 1 | 0 | 2 | 0 | 1 | 0 | 0 | 0 | 1 | 0 | |
| DNA methylases | 2 | 3 | 3 | 4 | 4 | 3 | 4 | 4 | 2 | 3 | 1 | 3 | |
| Transcription | |||||||||||||
| Regulatory proteins | 18 | 17 | 16 | 16 | 17 | 17 | 13 | 18 | 15 | 15 | 12 | 14 | |
| σ factors | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | 3 | |
| Hag proteins | 1 | 3 | 7 | 2 | 3 | 2 | 3 | 3 | 10 | 15 | 0 | 0 | |
| Motility | |||||||||||||
| FlaAB (class; orient.) | 1;→→ | 1;→→ | 2;→→ | 2;←→ | 2;←→ | 2;←→ | 1;→→ | 1;→→ | 2;←→ | 2;←→ | 1;→→ | 1;→→ | |
| MAF (class) | 1 | 1 | 2 | 2 | 2 | 2 | 1 | 1 | 2 | 2 | 1 | 1 | |
| Pse/Leg | Y/Y | Y/(Y) | Y/N | Y/N | Y/N | Y/N | Y/Y | Y/Y | Y/N | Y/N | Y/Y | Y/Y | |
Note.—HV, hypervariable; Che/Mot, chemotaxis/motility; MCP, methyl-accepting chemotaxis protein; 2CS, two component system; MAF, motility accessory factor; Pse/Leg, pseudaminic acid/legionaminic acid.
aCDS numbers do not include pseudogenes.
bcas1 gene nonfunctional.