Species | method | gene | primers | Nucleotide sequence (5'- 3') | Amplicon size (bp)c | Ref. |
---|---|---|---|---|---|---|
Ixodes | PCR | 16S ribosomal RNA | F-16sIxodes | AAAAAAATACTCTAGGGATAACAGCGTAA | 97 | [12] |
(extraction control) | Â | Â | R-16sIxodes | ACCAAAAAAGAATCCTAATCCAACA | Â | Â |
 |  |  | 16s-Ixodes-Probe | TTTTGGATAGTTCATATAGATAAAATAGTTTGC GACCTCG |  |  |
B. burgdorferi s.l. | real time PCR (duplex) | 23S-rRNA | Bb23Sf | CGAGTCTTAAAAGGGCGATTTAGT | 75 | [14] |
 |  |  | Bb23Sr | GCTTCAGCCTGGCCATAAATAG |  |  |
 |  |  | Bb23Sp-FAM | AGATGTGGTAGACCCGAAGCCGAGTG |  |  |
A. phagocytophilum | real time PCR (duplex) | msp2 | ApMSP2f | ATGGAAGGTAGTGTTGGTTATGGTATT | 77 | [14] |
 |  |  | ApMSP2r | TTGGTCTTGAAGCGCTCGTA |  |  |
 |  |  | ApMSP2p-HEX | TGGTGCCAGGGTTGAGCTTGAGATTG |  |  |
B. burgdorferi s.l. | PCR | flagellin | FLA1 | AGAGCAACTTACAGACGAAATTAAT | 482 | [16] |
 |  |  | FLA2 | CAAGTCTATTTTGGAAAGCACCTAA |  |  |
A. phagocytophilum | PCR | msp2 | msp2-3f | CCAGCGTTTAGCAAGATAAGAG | 334 | [15] |
 |  |  | msp2-3r | GMCCAGTAACAACATCATAAGC |  |  |
TBEv | rRT-PCR | 3' non-coding region | F-TBE 1 | GGGCGGTTCTTGTTCTCC | 67 | [12] |
 |  |  | R-TBE 1 | ACACATCACCTCCTTGTCAGACT |  |  |
 |  |  | TBE-Probe-WT | TGAGCCACCATCACCCAGACACA |  |  |
TBEv | nested PCR | non-structural protein NS5 | FSM-1 | GAGGCTGAACAACTGCACGA | 357 | [13] |
 |  |  | FSM-2 | GAACACGTCCATTCCTGATCT |  |  |
 |  | non-structural protein NS5 | FSM-1i | ACGGAACGTGACAAGGCTAG | 251 |  |
 |  |  | FSM-2i | GCTTGTTACCATCTTTGGAG |  |  |
Rickettsia spp. | PCR | citrate synthase | RpCS.877p | GGGGGCCTGCTCACGGCGG | 381 | [17] |
 |  |  | RpCS1258n | ATTGCAAAAAGTACAGTGAACA |  |  |
Cand. N. mikurensis | PCR | groEL | NM-128s | AACAGGTGAAACACTAGATAAGTCCAT | 1024 | [19] |
 |  |  | NM-1152as | TTCTACTTTGAACATTTGAAGAATTACTAT |  |  |
Babesia/Theileria | PCR | 18S rRNA | RLB-F2 | GACACAGGGAGGTAGTGACAA | 400 | [18] |
 |  |  | RLB-R2 | CTAAGAATTTCACCTCTGACAGT |  |  |