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Table 3 PCR/Real time PCR/LAMP primers (and probes) used for detection/characterisation of Francisella spp.

From: Francisella infections in farmed and wild aquatic organisms

Specific for Target gene or region Amplicon size Primer sequence (5' - 3') Probe sequence (Real time PCR) Reference
F. noatunensis subsp. noatunensis + subsp. orientalis 16S rRNA 101 bp FcF50
aac-gac-tgt-taa-tac-cgc-ata-ata-tct-g
Fc50-probe
gtg-gcc-ttt-gtg-ctg-c
Ottem et al. [51]
    FcR50
cct-tac-cct-acc-aac-tag-cta-atc-ca
  
F. noatunensis subsp. noatunensis + F. philomiragia FopA 85 bp FopAF
ggt-gcg-aac-atg-act-att-ggt-tat
FopA-probe
ttt-gca-gtt-cag-tat-aac
Ottem et al. [51]
    FopAR
aac-ctg-caa-ata-ctc-tac-cca-cta-act
  
F. noatunensis subsp. orientalis iglC 88 bp iglC forward
ggg-cgt-atc-taa-gga-tgg-tat-gag
iglC probe
atc-tat-tga-tgg-gct-cac-aac-ttc-aca-a
Soto et al. [68]
    iglC reverse
agc-aca-gca-tac-agg-caa-gct-a
  
Francisella-like 16S rRNA 286 bp FLB16S180f
gcg-gat-taa-agg-tgg-cct-ttg-c
n.a. Hsieh et al. [42]
    FLB16S465r
cct-gca-agc-tat-taa-ctc-aca-gg
  
Francisella spp. 16S rRNA 1113 bp F5
cct-ttt-tga-gtt-tcg-ctc-c
n.a. Forsmann et al. [64]
    F11
tac-cag-ttg-gaa-acg-act-gt
  
Francisella spp. 16S rRNA ~1170 bp Fr153F0.1
gcc-cat-ttg-agg-ggg-ata-cc
n.a. Barns et al. [11]
    Fr1281R0.1
gga-cta-aga-gta-cct-ttt-tga-gt
  
F. noatunensis subsp. noatunensis groEL Multiple bands Primer set 4 (LAMP) F3
ggt-gct-caa-ata-gtt-aaa-gaa-gt
n.a. Caipang et al. [69]
    B3
gta-ccc-act-tgc-tcg-ata-g
  
    FIP
ttc-tgt-aag-taa-cgc-ttg-agc-taa-ttt-tt c-tgc-tga-tgt-agc-agg-tg
  
    BIP
aac-agg-tat-tga-taa-ggc-tgc-tgt-ttt-tct-gaa-caa-ggc-tta-gaa-agt
  
  1. n.a.: not applicable.
  2. b: used in combination with sequencing.