TABLE 2.

Primers and probes used in this study

TargetPrimer or probeSpeciesNucleotide sequencePosition (nt)Reference
rrf-rrl intergenic spacer region5S(rrf)FB. burgdorferi sensu latoCTGCGAGTTCGCGGGAGA229-24647
23S(rrl)RB. burgdorferi sensu latoTCCTAGGCATTCACCATA482-46547
SlB. burgdorferi sensu latoCTTTGACCATATTTTTATCTTCCA453-43051
SsB. burgdorferi sensu strictoAACACCAATATTTAAAAAACATAA322-29951
GaB. gariniiAACATGAACATCTAAAAACATAAA322-29851
AfB. afzeliiAACATTTAAAAAATAAATTCAAGG305-27851
VS116B. valaisianaCATTAAAAAAATATAAAAAATAAATTTAAGG305-27851
rrs16SMFB. burgdorferi sensu latoAGAGTTTGATCCTGGCTTAG1529-151013
16SMRB. burgdorferi sensu latoCCTCCCTTACGGGTTAGAA84-10313
fD3B. burgdorferi sensu latoAGAGTTTGATCCTGGCTTAG8-2720
T50B. burgdorferi sensu latoGTTACGACTTCACCCTCCT1497-147920
S5B. burgdorferi sensu latoGAGGAATAAGCTTTGTAGGA442-46220
RS11B. burgdorferi sensu latoCTTAACCCAACACCTCACAGC1086-106620
flaFla outFB. burgdorferi sensu latoAARGAATTGGCAGTTCAATC271-2908
Fla outRB. burgdorferi sensu latoGCATTTTCWATTTTAGCAAGTGATG767-7438
PROBEB. burgdorferi sensu latoCACATATTCAGATGCAGACA300-31959
BbslSDB. burgdorferi sensu latoGCTGTAAATATTTATGCAGCTAATGTTGC556-58415
FL 8B. burgdorferi sensu strictoCTCTGGTGAGGGAGCTCAAACTGCTCAGGATGCACCGGTTCAAGAGGGT594-64245
FL 15B. gariniiCTCTGGTGAAGGAGCTCAGGCTGCTCAGACTGCACCTGTTCAAGAAGG594-64145
FL 16B. afzeliiTGCTGGTGAGGGAGCTCAAGCTGCTCAGGCTGCACCTGTTCAAGAGGGTGCT594-64445
BbssSDB. burgdorferi sensu strictoGGTTCAAGAGGGTGTTCAACAGG630-65215
BgSDB. gariniiAGGAGCTCAGGCTGCTCAGA603-62215
BafSDB. afzeliiCTCAAGAAGAAGGAGCTCAGCAA644-66615
BjSDB. japonicaGCCTGTTCAAGAAGGCATTCAACAG627-65115
BandSDB. andersoniiTGTTCAAGAGGGTATTCAACAG630-65115
BvSDB. valaisianaACACCTGTTGAAGAAGGTGCTCAACAG625-65215
Bgp127SDB. bissettiiGAAGGTGTTCAGCAAGAAGG637-65615
ospAN1B. burgdorferi sensu latoGAGCTTAAAGGAACTTCTGATAA184-20614
C1B. burgdorferi sensu latoGTATTGTTGTACTGTAATTGT745-72214
Detect. probeB. burgdorferi sensu latoCTTGAAGGCGTAAAAGCTGACAAA226-24912
SSO probeB. burgdorferi sensu latoACTAATGTTTTGCCATCTTCTTTGAA329-30428
p66outer1B. burgdorferi sensu latoCGAAGATACTAAATCTGT147-1588
outer2B. burgdorferi sensu latoGCTGCTTTTGAGATGTGTCC442-4618