. 2018 Jul 24;17:34. doi: 10.1186/s12941-018-0286-5

Table 1.

Oligonucleotides used in this study

Oligonucleotide name	Target gene	Oligonucleotide 5′ ➔ 3′	Amplification product (bp)	References
E. coli marker
uidA-forward	uidA	ATGTGCTGTGCCTGAACC	450	[60]
uidA-reverse	uidA	ATTGTTTGCCTCCCTGCTG
Virulence genes for extra-intestinal pathogenic E. coli
papC-forward	papC	GACGGCTGTACTGCAGGGTGTGGCG	350	[61]
papC-reverse	papC	ATATCCTTTCTGCAGGGATGCAATA	350	[61]
SfaSf	sfaS	GTGGATACGACGATTACTGTG	240	[62]
SfaSr	sfaS	CCGCCAGCATTCCCTGTATTC	240	[62]
Afaf	afa/dra	GGCAGAGGGCCGGCAACAGGC	592	[62]
Afar	afa/dra	CCCGTAACGCGCCAGCATCTC	592	[62]
FyuAf	fyuA	TGATTAACCCCGCGACGGGAA	880	[62]
FyuAr	fyuA	CGCAGTAGGCACGATGTTGTA	880	[62]
yfcV-forward	yfcV	ACATGGAGACCACGTTCACC	292	[63]
yfcV-reverse	yfcV	GTAATCTGGAATGTGGTCAGG	292	[63]
Vat-forward	vat	TCAGGACACGTTCAGGCATTCAGT	1100	[63]
Vat-reverse	vat	GGCCAGAACATTTGCTCCCTTGTT	1100	[63]
KpsMIIf	kpsMT II	GCGCATTTGCTGATACTGTTG	272	[62]
KpsMIIr	kpsMT II	CATCCAGACGATAAGCATGAGCA	272	[62]
Quinolone resistance genes
gyrA11753	gyrA	GTATAACGCATTGCCGC	251	[64]
gyrA12004	gyrA	TGCCAGATGTCCGAGAT	251	[64]
EC-PAR-A	parC	CTGAATGCCAGCGCCAAATT	189	[65]
EC-PAR-B	parC	GCGAACGATTTCGGATCGTC	189	[65]
qnrA-forward	qnrA	TCAGCAAGAGGATTTCTCA	605	[66]
qnrA-reverse	qnrA	GGCAGCACTATTACTCCCA	605	[66]
qnrB-forward	qnrB	GATCGTGAAAGCCAGAAAGG	469	[12]
qnrB-reverse	qnrB	ACGATGCCTGGTAGTTGTCC	469	[12]
qnrS-forward	qnrS	ACGACATTCGTCAACTGCAA	417	[12]
qnrS-reverse	qnrS	TAAATTGGCACCCTGTAGGC	417	[12]
qnrC-forward	qnrC	GGGTTGTACATTTATTGAATC	447	[64]
qnrC-reverse	qnrC	TCCACTTTACGAGGTTCT	447	[64]
qnrD-forward	qnrD	CGAGATCAATTTACGGGGAATA	582	[27]
qnrD-reverse	qnrD	AACAAGCTGAAGCGCCTG	582	[27]
qepA-forward	qepA	CTGCAGGTACTGCGTCATG	403	[67]
qepA-reverse	qepA	CGTGTTGCTGGAGTTCTTC	403	[67]
aac-forward	acc-(6′)-lb	TTGCGATGCTCTATGAGTGGCTA	482	[26]
aac-reverse	acc-(6′)-lb	CTCGAATGCCTGGCGTGTTT	482	[26]
Beta-lactamase resistant genes
blaTEM-forward	bla _TEM	GAGTATTCAACATTTTCGT	857	[30]
blaTEM-reverse	bla _TEM	ACCAATGCTTAATCAGTGA	857	[30]
blaSHV-forward	bla _SHV	TCGCCTGTGTATTATCTCCC	768	[30]
blaSHV-reverse	bla _SHV	CGCAGATAAATCACCACAATG	768	[30]
blaOXA-1-forward	bla _OXA-1	GCAGCGCCAGTGCATCAAC	198	[30]
blaOXA-1-reverse	bla _OXA-1	CCGCATCAAATGCCATAAGTG	198	[30]
blaOXA-7-forward	bla _{OXA-7, -9}	AGTTCTCTGCCGAAGCC	591	[30]
blaOXA-7-reverse	bla _{OXA-7, -9}	TCTCAACCCAACCAACCC	591	[30]
blaPSE-4-forward	bla _PSE-4	CTGCTCGTATAGGTGTTTCC	705	[30]
blaPSE-4-reverse	bla _PSE-4	TCGCATCATTTCGCTCTTC	705	[30]
blaCTX-M-3-f	bla _CTX-M-3	AATCACTGCGTCAGTTCAC	701	[30]
blaCTX-M-3-r	bla _CTX-M-3	TTTATCCCCCACAACCCAG	701	[30]
blaCTX-M-forward	bla _CTX-M	AAGGCGTTTTGACAGACTATT	920	This study
blaCTX-M-reverse	bla _CTX-M	GGTGACGATTTTAGCCGC	920	This study