TABLE 1.

Oligonucleotide sequences of primers and probes used in PCR and RLB hybridization for detection and identification of different pathogens

Target species	Target gene	Primer/probe name	Primer/probe sequence (5′ to 3′)	Primer/probe concn (μM)	Annealing temp (°C)	Reference
Primers
C. burnetii	htpAB	Trans 1	TAT GTA TCC ACC GTA GCC AGT C	0.2	63	45
		Trans 2	biotin-CCC AAC AAC ACC TCC TTA TTC
A. phagocytophilum	msp2	Msp2-3F	CCA GCG TTT AGC AAG ATA AGA G	0.4		46
		Msp2-3R	biotin-GCC CAG TAA CAA CAT CAT AAG C
SFG rickettsiae	ompA	Rr190.70p	ATG GCG AAT ATT TCT CCA AAA	0.4	46	36
		Rr190.602n	biotin-AGT GCA GCA TTC GCT CCC CCT
Borrelia spp.	16S rRNA	BORF	CGC TGG CAG TGC GTC TTA A	0.4		14
		16S	biotin-GCG GCT GCT GGC ACG TAA TTA GC
B. burgdorferi sensu lato	5S-23S rRNA	23SN2	ACC ATA GAC TCT TAT TAC TTT GAC CA	0.2	57	39
		5SCB	biotin-GAG AGT AGG TTA TTG CCA GGG
Probes
C. burnetii	htpAB	C. burnetii	amino-GCA AGA ATA CGG ACT CAC GA	2		This study
A. phagocytophilum	msp2	A. phagocytophilum	amino-GGT TAC GAG CGC TTC AAG ACC	2		This study
Rickettsia spp.	ompA	OmpA-All	amino-GGC AAA AGC TTA ACT TTA AA	2		This study
Borrelia spp.	16S rRNA	Borrelia sp.	amino-GAG GAA TAA GCT TTG TAG GAA ATG ACA	2		14
Borrelia sp. strain R57	16S rRNA	Borrelia R 57	amino-AGT CAT TAA AGA TGT TTA ATG	16		14
B. burgdorferi sensu lato	5S-23S rRNA	Bb SL	amino-CTT TGA CCA TAT TTT TAT CTT CCA	0.3		39
B. burgdorferi sensu stricto	5S-23S rRNA	Bb SS	amino-AAC ACC AAT ATT TAA AAA ACA TAA	0.3		39
B. afzelii	5S-23S rRNA	Bb AF	amino-AAC ATT TAA AAA ATA AAT TCA AGG	0.3		39
B. garinii	5S-23S rRNA	Bb GA	amino-AAC ATG AAC ATC TAA AAA CAT AAA	0.3		39
B. valaisiana	5S-23S rRNA	Bb VA	amino-CAT TAA AAA AAT ATA AAA AAT AAA TTT AAG G	0.3		39
B. lusitaniae	16S rRNA	Bb LU	amino-TCT ATT TTA TTT TTT ATA TTT TTT T	0.9		13