Table 1 Summary of SSH experiments.
| Â | SSH | ||||
|---|---|---|---|---|---|
| Â | 670 v 11168 | 504 v 11168 | 1967 v 11168 | 629 v 2 drivers | 961 v 2 drivers |
Tester MLST group | ST-21 | ST-21 | ST-42 | ST-45 | ST-61 |
Tester source | duck | cattle | cattle | rabbit | rabbit |
SSH restriction enzymes | Alu I/Dra I | Alu I/Dra I | Alu I/Dra I | Rsa I | Rsa I |
clones sequenced | 75 | 92 | 98 | 98 | 145 |
unsubtracted | 16 | 40 | 24 | 53 | 60 |
%subtracted | 79% | 57% | 76% | 46% | 59% |
repeats | 7 | 9 | 12 | 28 | 64 |
%repeats | 12% | 17% | 16% | 53% | 75% |
subtracted (SSH) sequences | 52 | 43 | 62 | 17 | 21 |
SSH sequence length range | Â | Â | Â | Â | Â |
   <200 bp | 21 | 22 | 14 | 0 | 1 |
   200–400 bp | 28 | 20 | 37 | 4 | 5 |
   400–600 bp | 3 | 1 | 9 | 4 | 2 |
   >600 bp | 0 | 0 | 2 | 9 | 13 |
Best BLASTX match by strain | Â | Â | Â | Â | Â |
RM1221 (chicken) | 16 | 23 | 8 | 4 | 4 |
81–176 (human) | 16 | 1 | 39 | 4 | 0 |
11168 (human) | 2 | 2 | 1 | 1 | 0 |
other C. jejuni | 11 | 16 | 12 | 5 | 17 |
other Campylobacter sp. | 5 | 1 | 1 | 1 | 0 |
other genera | 0 | 0 | 0 | 2 | 0 |
no significant match | 2 | 0 | 1 | 0 | 0 |
% Campylobacter | 96% | 100% | 98% | 88% | 100% |
Campylobacter 50–80% ID | 2 | 0 | 2 | 0 | 1 |
Campylobacter <50% ID | 0 | 0 | 0 | 1 | 2 |
Best BLASTX by function | Â | Â | Â | Â | Â |
capsule | 0 | 1 | 6 | 3 | 2 |
LOS | 0 | 0 | 6 | 1 | 6 |
flagella/motility | 0 | 2 | 4 | 1 | 4 |
restriction-modification | 1 | 1 | 4 | 0 | 0 |
membrane/transport | 2 | 5 | 7 | 3 | 3 |
metabolism/biosynthesis | 1 | 4 | 18 | 4 | 0 |
plasmid | 24 | 0 | 1 | 0 | 0 |
bacteriophage | 14 | 7 | 0 | 0 | 2 |
hypothetical or unknown | 7 | 23 | 12 | 2 | 1 |
others | 1 | 0 | 3 | 3 | 3 |
no significant match | 2 | 0 | 1 | 0 | 0 |