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Table 1 Primer sets for the pathotypes and virulence genes for the E. coli and Salmonella spp.

From: Molecular basis of virulence in clinical isolates of Escherichia coli and Salmonella species from a tertiary hospital in the Eastern Cape, South Africa

Isolate species/subgroups

Target gene

Primer

Nucleotide Sequence (5'- 3')

Amplicon size (bp)

Reference

E. coli

EPEC and EHEC

eaeA

EAE-a

ATGCTTAGTGCTGGTTTAGG

248

[63]

  

EAE-b

GCCTTCATCATTTCGCTTTC

  

EHEC

stx 1

JMS1-F

GTCACAGTAACAAACCGTAACA

95

[64]

  

JMS1-R

TCGTTGACTACTTCTTATCTGGA

  

ETEC

LT

LT-1

AGCAGGTTTCCCACCGGATCACCA

132

[65]

 

ST

LT-2

GTGCTCAGATTCTGGGTCTC

190

[66]

  

STa-F

GCTAATGTTGGCAATTTTTATTTCTGTA

  
  

STa-R

AGGATTACAACAAAGTTCACAGCAGTAA

  

EAEC

aggR

AggRks1

GTATACACAAAAGAAGGAAGC

254

[67]

 

astA

aggRkas2

ACAGAATCGTCAGCATCAGC

106

[68]

  

EAST-1S

GCCATCAACACAGTATATCC

  
  

EAST-1AS

GAGTGACGGCTTTGTAGTCC

  

EIEC

VirA

virA-F

CTGCATTCTGGCAATCTCTTCACA

215

[69]

  

virA-R

TGATGAGCTAACTTCGTAAGCCCTCC

  

Salmonella

 

invA

invA 139

GTGAAATTATCGCCACGTTCGGGCAA

284

[70]

  

invA 141

TCATCGCACCGTCAAAGGAACC

  
 

sefA

S1

GCC GTA CAC GAG CTT ATA GA

250

[71]

  

S4

ACC TAC AGG GGC ACA ATA AC

  
 

fliC

Fli15

CGG TGT TGC CCA GGT TGG TAA T

620

[72]

  

Typ04

ACT GGT AAA GAT GGC T

  
  1. flic-flagellin H1; invA-invasion; sefA- fimbrial antigen; aggR- transcriptional activator for EAEC aggregative adherence fimbria I expression; eaeA-E. coli attaching and effacing; astA-EAEC heat-stable enterotoxin; LT- heat-labile enterotoxin; ST- heat-stable enterotoxin; VirA- virulence plasmid.