Table 3.
Microfluidic real-time PCR results confirmed by sequencing of conventional PCR and nested PCR amplification products.
| Pathogen Identification by Microfluidic Real-Time PCR | Host a | Similarity % | Accession Number of the Reference Sequences |
Pathogen Identification by Sequencing b (Targeted Gene) | Accession Number |
|---|---|---|---|---|---|
| Anaplasma spp. | Rh. sanguineus | 99.7 | KJ410249 |
Anaplasma sp. (16S rRNA) |
MW508491 |
| Anaplasma spp. | Hae. Erinacei | 99.8 | MN148616 |
E. ewingii (16S rRNA) |
MW508469 |
| Ehrlichia spp. |
Hae. erinacei
Atelerix algirus |
99.8–100 | MN148616 |
E. ewingii (16S rRNA) |
MW508471 MW508473 |
| Ehrlichia spp. | Atelerix algirus | 99.3 | AB074459 |
Ca. E. shimenensis (16S rRNA) |
MW508474MW508475MW508468 |
| Rickettsia spp. | A. erinacei | 100 |
MN186290 MK923741 |
R. asembonensis (gltA) |
MW508476-MW508479 |
| Rickettsia spp. | Rh. sanguineus | 100 | MK761227 |
R. lusitaniae (gltA) |
MW508481 |
| Rickettsia spp. | A. erinacei | 99.3 | AF123714 |
R. massiliae (ompB) |
MW508483 |
| Rickettsia massiliae | Rh. sanguineus | 100 | DQ503428 |
R. massiliae (ompB) |
MW508482- MW508489 |
| Theileria spp. | Atelerix algirus | 99 | AF245279 |
T. youngi (18S rRNA) |
MW508493- MW508496 |
| Hepatozoon spp. | Atelerix algirus | 100 | KU680466 |
Hepatozoon sp. (18S rRNA) |
MW508490 |
| Coxiella burnetii |
Atelerix algirus
A. erinacei Hae. erinacei |
100 |
MN540441 LC46497 |
C. burnetii (16S rRNA) |
MW508460- MW508464 |
| Borrelia sp. | Rh. sanguineus | 99.7 | MN958351 |
Borrelia sp. (flaB) |
MW508492 |
a Rh: Rhipicephalus; Hae: Haemaphysalis; A: Archaeopsylla; b E: Ehrlichia; Ca. E: Candidatus Ehrlichia; R: Rickettsia; T: Theileria; C: Coxiella.