Table 3 Selected and designed primers with expected amplicon sizes
Pathogen | Target gene | Primer sequence (5′–3′) | Amplicon size (bp) | Source |
|---|---|---|---|---|
Multipex assay A | ||||
  Salmonella spp. | InvA-F | GTGAAATTATCGCCACGTTCGGGCAA | 284 | [37] |
InvA-R | TCATCGCACCGTCAAAGGAACC | |||
  Escherichia coli | uspA-F | TTCACATCAATAAGCCCGGT | 128 | This study |
uspA-R | CTCTCCCCGGAAAGCAAAGT | |||
  Shigella group | uspA-F | TTCACATCAATAAGCCCGGT | 128 | This study |
uspA-R | CTCTCCCCGGAAAGCAAAGT | |||
  Acinetobacter baumanii | secE-F | GACGCGCCAATTCCTCAAAG | 320 | This study |
secE-R | TGCCACGATGTTGTGACTGT | |||
  Pseudomonas aeruginosa | gyrB-F | GGCGTGGGTGTGGAAGTC | 190 | [38] |
gyrB-R | TGGTGGCGATCTTGAACTTCTT | |||
  Vibrio cholerae | toxR-F | ATGTTCGGATTAGGACAC | 883 | [39] |
toxR-R | TACTCACACACTTTGATGGC | |||
Multiplex assay B | ||||
  Camphylobacter spp. | flaA-F | AATAAAAATGCTGATAAAACAGGTG | 855 | [40] |
flaA-R | TACCGAACCAATGTCTGCTCTGATT | |||
  Enterobacter spp. | ampCgene-F | TTGACTCGCTATTACGGAAGAT | 1181 | [41] |
ampCgene-R | GCAATGTTTTACTGTAGCGC | |||
  Aeromonas spp. | DnaJ gene Aero -F | CGAGATCAAGAAGGCGTACAAG | 891 | [42] |
dnaJ gene Aero -R | CACCACCTTGCACATCAGATC | |||
  Providentia alcalifacience | 16S rRNA-F | ACCGCATAATCTCTTAGG | 515 | This study |
16S rRNA-R | CTACACATGGAATTCTAC | |||
  Klebsiella pneumonia | gltA-F | CGTCGTGCGAAAGACAAGA | 174 | This study |
gltA-R | GCGATATGCTCCAGCTCCAT | |||
Confirmation primer for E. coli | ||||
  E. coli | EClpma (− 1) | ACCAGACCCAGCACCAGATAAG | 463 | [23] |
EClpma (+ 1) | GCACCTACGATGTTTTTGACCA | |||