TABLE 2.
Characteristics and sequences of primers and probes used for detection and genotype differentiation of B. burgdorferi sensu lato
| Target organism(s) | Target genea | Oligonucleotide sequence (5′–3′)b | Primer/probe concn (μM) | Reference |
|---|---|---|---|---|
| B. burgdorferi | ospA | F, ATATTTATTGGGAATAGGTCTAATAT | 0.5/0.4 | 33 |
| R, CTTTGTCTTTTTCTTTRCTTACAAG | ||||
| P, AAGCAAAATGTTAGCAGCCTTGA | ||||
| B. burgdorferi | 16S rRNA gene | F, GCTGTAAACGATGCACACTTGGT | 0.5/0.2 | 39 |
| R, GGCGGCACACTTAACACGTTAG | ||||
| P, TTCGGTACTAACTTTTAGTTAA-MGB | ||||
| B. afzelii and B. bissettiae | uvr-Ba | F, GCTCAGCGYATTAGGCTTGCTACT | 0.5/0.2 | Modified method based on reference 28c |
| R, GCTCAACAACAATTACMGTATTGCC | ||||
| P, AAGGCCAATGCTTGG (LNA) | ||||
| B. garinii and B. bavariensis | hbb-Bg | F, GGAAATTAGTTTATGTCTTTTTCAAG | 0.5/0.2 | Modified method based on reference 29c |
| R, TAAGCTCTTCAAAAAAAGCATCTA | ||||
| P, AGACCGAAGATTACTAAATCAGATATTGT | ||||
| B. burgdorferi sensu stricto, B. bissettiae, B. afzelii | hbb-Bb | F, GGAAATTAGTTTATGTCTTTTTCAAG | 0.5/0.2 | Modified method based on reference 29c |
| R, TAAGCTCTTCAAAAAAAGCATCTA | ||||
| P, AGACCAAAGGTTACTAAGTCAGACATTG | ||||
| B. garinii and B. spielmanii | nifS-Bg | F, ATAATTTATTTTGACAATGCAGCA | 0.5/0.5 | 28 |
| R, TTTTATGCTAGATTGAATTGCAAA | ||||
| P, CTAGCATTGAATATTATGAAAATTACAAC | ||||
| B. bavariensis | nifS-Bav | F, ATAATTTATTTTGACAATGCAGCA | 0.5/0.5 | 28 |
| R, TTTTATGCTAGATTGAATTGCAAA | ||||
| P, CTATCATTGAATATTATGAAAATTACAAC |
a
ospA, outer surface protein A; uvr, excinuclease ABC subunit A; hbb, protein H; nifS, aminotransferase.
b
F, forward primer; R, reverse primer; P, probe; MGB, minor groove binder; LNA, lock nucleic acids. LNA bases are indicated by boldface letters.
c
The probes used in the uvr and hbb assays are based on the references given and a redesign by Olfert Landt (TIB Molbiol, Berlin, Germany).