Molecular characterization and antimicrobial resistance of potentially human‐pathogenic Escherichia coli strains isolated from riding horses

Reshadi, Pouya; Heydari, Fatemeh; Ghanbarpour, Reza; Bagheri, Mahboube; Jajarmi, Maziar; Amiri, Mohadese; Alizade, Hesam; Badouei, Mahdi Askari; Sahraei, Shademan; Adib, Nasrin

doi:10.1186/s12917-021-02832-x

Table 2 Primer sequences and PCR condition for detection of antimicrobial resistance and phylo-group genes

From: Molecular characterization and antimicrobial resistance of potentially human‐pathogenic Escherichia coli strains isolated from riding horses

Target (subject)	Sequence (5’–3’)	PCR condition	Product size (bp)	Reference
bla_TEM (Resistance to β-lactam)	F^a-GCGGAACCCCTATTTG	35 cycles: 95°C (30 s), 52°C (30 s), 72°C (60 s)	963	[11]
bla_TEM (Resistance to β-lactam)	R^b-ACCAATGCTTAATCAGTGAG	35 cycles: 95°C (30 s), 52°C (30 s), 72°C (60 s)	963	[11]
bla_SHV (Resistance to β-lactam)	F-TTATCTCCCTGTTAGCCACC	35 cycles: 95°C (30 s), 54°C (30 s), 72°C (30 s)	795	[12]
bla_SHV (Resistance to β-lactam)	R-GATTTGCTGATTTCGCTCGG	35 cycles: 95°C (30 s), 54°C (30 s), 72°C (30 s)	795	[12]
bla_CTX-M (Resistance to β-lactam)	F-CGATGTGCAGTACCAGTAA	35 cycles: 95°C (30 s), 60°C (30 s), 72°C (60 s)	585	[13]
bla_CTX-M (Resistance to β-lactam)	R-TTAGTGACCAGAATCAGCGG	35 cycles: 95°C (30 s), 60°C (30 s), 72°C (60 s)	585	[13]
sulI (Resistance to sulfonamide)	F-TTCGGCATTCTGAATCTCAC	30 cycles: 94°C (30 s), 58°C (30 s), 72°C (60 s)	822	[14]
sulI (Resistance to sulfonamide)	R-ATGATCTAACCCTCGGTCTC	30 cycles: 94°C (30 s), 58°C (30 s), 72°C (60 s)	822	[14]
sulII (Resistance to sulfonamide)	F-GCGCTCAAGGCAGATGGCATT	30 cycles: 94°C (30 s), 69°C (30 s), 72°C (60 s)	293	[15]
sulII (Resistance to sulfonamide)	R-GCGTTTGATACCGGCACCCGT	30 cycles: 94°C (30 s), 69°C (30 s), 72°C (60 s)	293	[15]
dhfrI (Resistance to trimethoprim)	F-AAGAATGGAGTTATCGGGAATG	30 cycles: 94°C (30 s), 55°C (30 s), 72°C (60 s)	391	[14]
dhfrI (Resistance to trimethoprim)	R-GGGTAAAAACTGGCCTAAAATTG	30 cycles: 94°C (30 s), 55°C (30 s), 72°C (60 s)	391	[14]
dhfrV (Resistance to trimethoprim)	F-CTGCAAAAGCGAAAAACGG	35 cycles: 94°C (30 s), 58°C (30 s), 72°C (60 s)	432	[14]
dhfrV (Resistance to trimethoprim)	R-AGCAATAGTTAATGTTTGAGCTAAAG	35 cycles: 94°C (30 s), 58°C (30 s), 72°C (60 s)	432	[14]
aadA (Resistance to aminoglycoside)	F-TGATTTGCTGGTTACGGTGAC	30 cycles: 94°C (30 s), 58°C (30 s), 72°C (60 s)	284	[14]
aadA (Resistance to aminoglycoside)	R-CGCTATGTTCTCTTGCTTTTG	30 cycles: 94°C (30 s), 58°C (30 s), 72°C (60 s)	284	[14]
stx1 (STEC)	F-CAGTTAATGTGGTGGCGAAGG	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	348	[16]
stx1 (STEC)	R-CACCAGACAATGTAACCGCTG	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	348	[16]
stx2 (STEC)	F-ATCCTATTCCCGGGAGTTTACG	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	584	[16]
stx2 (STEC)	R-GCGTCATCGTATACACAGGAGC	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	584	[16]
eae (EPEC)	F-TCAATGCAGTTCCGTTATCAGTT	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	482	[16]
eae (EPEC)	R-GTAAAGTCCGTTACCCCAACCTG	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	482	[16]
stII (ETEC)	F-AAAGGAGAGCTTCGTCACATTTT	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	129	[16]
stII (ETEC)	R-AATGTCCGTCTTGCGTTAGGAC	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	129	[16]
lt (ETEC)	F-GCACACGGAGCTCCTCAGTC	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	218	[16]
lt (ETEC)	R-TCCTTCATCCTTTCAATGGCTTT	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	218	[16]
ipaH (EIEC)	F-CTCGGCACGTTTTAATAGTCTGG	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	933	[16]
ipaH (EIEC)	R-GTGGAGAGCTGAAGTTTCTCTGC	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	933	[16]
aafII (EAEC)	F-CACAGGCAACTGAAATAAGTCTGG	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	378	[16]
aafII (EAEC)	R-ATTCCCATGATGTCAAGCACTTC	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	378	[16]
daaE (DAEC)	F-GAACGTTGGTTAATGTGGGGTAA	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	542	[16]
daaE (DAEC)	R-TATTCACCGGTCGGTTATCAGT	35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s)	542	[16]
arpA (phylo-grouping)	F-AACGCTATTCGCCAGCTTGC	30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min)	400	[5]
arpA (phylo-grouping)	R-TCTCCCCATACCGTACGCTA	30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min)	400	[5]
chuA (phylo-grouping)	F-ATGGTACCGGACGAACCAAC	30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min)	288	[5]
chuA (phylo-grouping)	R-TGCCGCCAGTACCAAAGACA	30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min)	288	[5]
yjaA (phylo-grouping)	F-CAAACGTGAAGTGTCAGGAG	30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min)	211	[5]
yjaA (phylo-grouping)	R-AATGCGTTCCTCAACCTGTG	30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min)	211	[5]
TspE4.C2 (phylo-grouping)	F-CACTATTCGTAAGGTCATCC	30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min)	152	[5]
TspE4.C2 (phylo-grouping)	R-AGTTTATCGCTGCGGGTCGC	30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min)	152	[5]
arpA-group E (phylo-grouping)	F-GATTCCATCTTGTCAAAATATGCC	30 cycles: 94°C (5 s), 57°C (20 s) and 1 cycle 72°C (5 min)	301	[5]
arpA-group E (phylo-grouping)	R-GAAAAGAAAAAGAATTCCCAAGAG	30 cycles: 94°C (5 s), 57°C (20 s) and 1 cycle 72°C (5 min)	301	[5]
trpA-group C (phylo-grouping)	F-AGTTTTATGCCCAGTGCGAG	30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min)	219	[5]
trpA-group C (phylo-grouping)	R-TCTGCGCCGGTCACGCCC	30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min)	219	[5]

^a Forward, ^b Reverse

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ISSN: 1746-6148

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