Table 1 Primer and probe sequences for qPCR assays

Ft-tul4

Ft-tul4-F

forward primer

agattacaatggcaggctcc

tul4

detection of F. tularensis and F. novicida

[46]

Ft-tul4-R

reverse primer

agctgtccacttaccgctaca

Ft-tul4-P

probe

Cy5- ttctaagtgccatgatacaagcttcccaa-BHQ-2

Fth-B2

Fth-B2-F

forward primer

cctatccaatactccgagttagt

FTS_0806

Fth-specific

[34]

Fth-B2-R

reverse primer

aaatcaaaagaagagttaaaacaagc

Fth-B2-P

probe

FAM-ctctggccagttatttttatcaaagccag-BHQ-1

F-16S

F-16S-F2

forward primer

tgacaggtgctgcacggctgt

16S

Francisellaceae-specific

this study

F-16S-R2

reverse primer

gcagccctctgtaatacccatt

this study

F-16S-P2

probe

Cy5.5-acccaacttaatgatggtaactatcaatag-BHQ-3

this study

B.6

B.6-E–F

forward primer

atgagtaattcattattctcctagattgaaa

FTL-1504

discrimination of Fth B.4, B.6 and B.12 clades:

B.12-C-P (FAM) signal = B.12 strain

B.6-ES-P (Cy5) signal = B.6 strain

B.12-C-P (FAM) and B.6-ES-P (Cy5) signal = B.4 strain

this study

B.6-E-R

reverse primer

gtgataaataaaaatctatagcataacatcc

this study

B.6-ES-P

probe

Cy5- aatgattgataatagaacctacccctataccaact-BHQ-2

this study

B.12

B.12-C2-F

forward primer

ggtgcttgagtcataggtggc

FTL-1896

this study

B.12-C2-R

reverse primer

taacaagtgtaggtgcagcaa

this study

B.12-C-P

probe

FAM- tcgccatattgaatattagttccagtagctgttag -BHQ-1

this study

B.71

B.71-F2

forward primer

ttaaaaattgcaagtccatgtcta

Intergenic region, deletion, 888,400^a

Fth clade B.71 specific

(no signal for B.71)

this study

B.71-R2

reverse primer

caacacctaaagcttctaatgatttcacataatgactt

this study

B.71-P2

probe

Hex-taatattcctcaacagttaactatatctagcaaaacaatta-BHQ-1

this study

KoMa

KoMa2-F

forward primer

ggtgatgccgcattattactagg

internal amplification control

[61]

KoMa2-R

reverse primer

ggtattagcagtcgcaggctt

KoMa2-P

probe

Joe-ttcttgcttgaggatctgtcgtggatcg-BHQ-1