Table 2.
Oligonucleotide name | Target gene | Oligonucleotide 5′ → 3′ | Amplification product (bp) | Reference |
---|---|---|---|---|
E. coli MARKER | ||||
uidA-forward | uidA | ATGTGCTGTGCCTGAACC | 450 | This study. |
uidA-reverse | ATTGTTTGCCTCCCTGCTG | |||
VIRULENCE GENES FOR INTESTINAL PATHOGENIC E. coli | ||||
VTcom-forward | stx1/stx2 | GAGCGAAATAATTTATATGTG | 518 | Toma et al., 2003 |
VTcom-reverse | TGATGATGGCAATTCAGTAT | |||
East-forward | eastI | ATGCCATCAACACAGTATAT | 110 | Vila et al., 2000 |
East-reverse | GCGAGTGACGGCTTTGTAGT | |||
AafAf | aafA | AAATTAATTCCGGCATGG | 518 | Huang et al., 2007 |
AafAr | ATGTATTTTTAGAGGTTGAC | |||
aggRks1 | aggR | GTATACACAAAAGAAGGAAGC | 254 | Aranda et al., 2007 |
aggRksa2 | ACAGAATCGTCAGCATCAGC | |||
AL65 | est | TTAATAGCACCCGGTACAAGCAGG | 147 | Toma et al., 2003 |
Al125 | CCTGACTCTTCAAAAGAGAAAATTAC | |||
LTL | elt | TCTCTATGTGCATACGGAGC | 322 | Toma et al., 2003 |
LTR | CCATACTGATTGCCGCAAT | |||
IpaIII | ipaH | GTTCCTTGACCGCCTTTCCGATACCGTC | 619 | Toma et al., 2003 |
IpaIV | GCCGGTCAGCCACCCTCTGAGAGTAC | |||
BFP1 | bfpA | AATGGTGCTTGCGCTTGCTGC | 326 | Aranda et al., 2007 |
BFP2 | GCCGCTTTATCCAACCTGGTA | |||
eae1 | eae | CTGAACGGCGATTACGCGAA | 880 | Aranda et al., 2007 |
eae3 | CGAGACGATACGATCCAG | |||
VIRULENCE GENES FOR EXTRA-INTESTINAL PATHOGENIC E. coli | ||||
papC-forward | papC | GACGGCTGTACTGCAGGGTGTGGCG | 350 | Blanco et al., 1997 |
papC-reverse | ATATCCTTTCTGCAGGGATGCAATA | |||
SfaSf | sfaS | GTGGATACGACGATTACTGTG | 240 | Johnson and Stell, 2000 |
SfaSr | CCGCCAGCATTCCCTGTATTC | |||
Afaf | afa/dra | GGCAGAGGGCCGGCAACAGGC | 592 | Johnson and Stell, 2000 |
Afar | CCCGTAACGCGCCAGCATCTC | |||
FyuAf | fyuA | TGATTAACCCCGCGACGGGAA | 880 | Johnson and Stell, 2000 |
FyuAr | CGCAGTAGGCACGATGTTGTA | |||
KpsMIIf | kpsMT II | GCGCATTTGCTGATACTGTTG | 272 | Johnson and Stell, 2000 |
KpsMIIr | CATCCAGACGATAAGCATGAGCA | |||
QUINOLONE RESISTANCE GENES | ||||
gyrA11753 | gyrA | GTATAACGCATTGCCGC | 251 | Wang et al., 2001 |
gyrA12004 | TGCCAGATGTCCGAGAT | |||
EC-PAR-A | parC | CTGAATGCCAGCGCCAAATT | 189 | Deguchi et al., 1997 |
EC-PAR-B | GCGAACGATTTCGGATCGTC | |||
qnrA-forward | qnrA | TCAGCAAGAGGATTTCTCA | 605 | Maynard et al., 2004 |
qnrA-reverse | GGCAGCACTATTACTCCCA | |||
qnrB-forward | qnrB | GATCGTGAAAGCCAGAAAGG | 469 | Robicsek et al., 2006b |
qnrB-reverse | ACGATGCCTGGTAGTTGTCC | |||
qnrS-forward | qnrS | ACGACATTCGTCAACTGCAA | 417 | Robicsek et al., 2006b |
qnrS-reverse | TAAATTGGCACCCTGTAGGC | |||
aac-forward | acc-(6′)-lb | TTGCGATGCTCTATGAGTGGCTA | 482 | Park et al., 2006 |
aac-reverse | CTCGAATGCCTGGCGTGTTT |