TABLE 1.
Identity of the 39 groEL sequence types used as OTUs in phylogenetic analyses
| groEL sequence type | No. | Location(s) and host species | GenBank accession no. | Nucleotides at variable positionsb
|
|||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 593 | 613 | 660 | 662 | 674 | 700 | 708 | 726 | 732 | 774 | 840 | 849 | 933 | 939 | 969 | 972 | 979 | 996 | 1002 | 1022 | 1098 | 1113 | ||||
| Strains with proven pathogenicitya | |||||||||||||||||||||||||
| 1-HGA-Europe | 5 | Slovenia (human), Sweden (horse), Germany (tick), Switzerland (horse), Germany (horse) | AF033101, AY529490, AY281849, U96735, AF482760 | A | A | T | T | A | C | A | T | A | G | C | G | C | T | A | C | A | G | T | A | T | A |
| 2-HGA-USA | 11 | California (2 humans), New York (human), Minnesota (human), California (5 horses), California (woodrat), Missouri (dog) | AF172159/63, U96728, U72628, AF172158/60-62/U96727, AF173988, AY219849 | • | • | C | • | • | • | • | • | • | • | • | A | • | • | G | A | • | T | • | • | • | G |
| 3-Sweden.1 | 1 | Sweden (horse) | AY529489 | • | • | • | • | • | • | • | • | • | • | T | • | T | • | • | • | • | • | • | • | • | • |
| 4-Norway.1 | 1 | Norway (sheep) | AF548385 | • | • | C | • | • | • | • | • | • | • | • | • | • | • | • | • | • | • | C | • | • | • |
| 5-Norway.2 | 2 | Norway (sheep), Scotland (sheep) | AF548386, U96730 | • | • | C | • | • | • | • | • | G | T | T | • | • | • | • | • | • | • | C | • | • | • |
| 6-Italy.1 | 1 | Italy (dog, Pippo) | AY848751 | • | • | C | C | • | • | • | C | • | • | • | A | • | • | G | A | • | T | • | • | C | G |
| 7-Italy.2 | 1 | Italy (horse, Quada) | AY848747 | • | G | C | • | • | • | • | • | • | • | • | A | • | • | G | A | • | T | • | • | • | G |
| 8-Italy.3 | 1 | Italy (horse, Dollaro) | AY848748 | • | • | C | • | T | T | G | • | • | • | • | A | • | • | G | A | G | T | • | • | • | G |
| 9-Italy.4 | 1 | Italy (dog, Stechi) | AY848750 | • | • | C | • | • | • | • | • | • | • | • | A | • | A | G | A | • | T | • | • | • | G |
| 10-Italy.5 | 1 | Italy (horse, Sogno) | AY848749 | T | • | C | • | • | • | • | • | • | • | • | A | • | • | G | A | • | T | • | • | • | G |
| 11-Italy.6 | 1 | Italy (dog, Perla) | AY848752 | • | • | C | • | • | • | • | • | • | • | • | A | • | • | G | A | • | T | • | G | • | G |
| Strains with unknown pathogenicitya | |||||||||||||||||||||||||
| 12-Slovenia.794 | 1 | Slovenia (roe deer) | AF478556 | ||||||||||||||||||||||
| 13-Slovenia.805 | 2 | Slovenia (roe deer), Germany | AF478555, AY281827 | ||||||||||||||||||||||
| 14-Slovenia.806 | 1 | Slovenia (roe deer) | AF478554 | ||||||||||||||||||||||
| 15-Switzerland.811 | 14 | Switzerland (roe deer), Slovenia (2 roe deer), Germany (11 ticks) | AF383226, AF478551/59, AF281810/12/14-17/19/21-22/46/50 | ||||||||||||||||||||||
| 16-Germany.X17 | 1 | Germany (tick) | AY281848 | ||||||||||||||||||||||
| 17-Scotland | 3 | Scotland (feral goat), Germany (2 ticks) | U96729, AY281844/31 | ||||||||||||||||||||||
| 18-Germany.L158 | 2 | Germany (2 ticks) | AY281832/20 | ||||||||||||||||||||||
| 19-Germany.145 | 2 | Germany (2 ticks) | AY281830/25 | ||||||||||||||||||||||
| 20-Germany.94 | 1 | Germany (tick) | AY281828 | ||||||||||||||||||||||
| 21-Germany.22 | 1 | Germany (tick) | AY281818 | ||||||||||||||||||||||
| 22-CzechRep.A41 | 2 | Czech Republic (roe deer), Germany (tick) | AY220468, AY281824 | ||||||||||||||||||||||
| 23-Germany.D20 | 1 | Germany (tick) | AY281815 | ||||||||||||||||||||||
| 24-Austria.A6 | 1 | Austria (tick) | AY220470 | ||||||||||||||||||||||
| 25-Switzerland.56 | 2 | Switzerland (roe deer), Germany (tick) | AF383225, AY28181 | ||||||||||||||||||||||
| 26-Austria.A4 | 1 | Austria (roe deer) | AY220469 | ||||||||||||||||||||||
| 27-Austria.A1 | 1 | Austria (roe deer) | AY220467 | ||||||||||||||||||||||
| 28-Switzerland.1 | 1 | Switzerland (bank vole) | AF192796 | ||||||||||||||||||||||
| 29-California | 1 | California (tick) | AF173989 | ||||||||||||||||||||||
| 30-Slovenia.478 | 2 | Slovenia (roe deer), Germany (tick) | AF478564, AY281836 | ||||||||||||||||||||||
| 31-Slovenia.474 | 1 | Slovenia (red deer) | AF478563 | ||||||||||||||||||||||
| 32-Slovenia.707 | 1 | Slovenia (red deer) | AF478557 | ||||||||||||||||||||||
| 33-Slovenia.473 | 1 | Slovenia (red deer) | AF478562 | ||||||||||||||||||||||
| 34-Slovenia.832 | 1 | Slovenia (red deer) | AF478553 | ||||||||||||||||||||||
| 35-Slovenia.812 | 1 | Slovenia (red deer) | AF478552 | ||||||||||||||||||||||
| 36-Slovenia.472 | 3 | Slovenia (roe deer), Germany (tick), Switzerland (roe deer) | AF478561, AY281813, AF383227 | ||||||||||||||||||||||
| 37-Slovenia.471 | 1 | Slovenia (roe deer) | AF478560 | ||||||||||||||||||||||
| 38-Slovenia.921 | 16 | Slovenia (roe deer), Germany (15 ticks) | AF478558, AY281823/26/29/33-35/37-43/45/47 | ||||||||||||||||||||||
| 39-Switzerland | 1 | Switzerland (tick) | AF202895 | ||||||||||||||||||||||
a
Pathogenicity based on the 530-bp region considered in this study.
b
Numbering based on the accession number AF033101 sequence. Dots indicate nucleotides identical to nucleotides in the HGA-Europe sequence. The underlined nucleotides are nucleotides that are shared by the USA-HGA sequence type and the sequence types obtained in this study (Italy.1 to Italy.6).