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Table 3 8plex, 5plex and 9plex primers and respective cycling conditions. The gene name, primer sequence and amplicon size are reported. Lowercase letters in the gene sequences (8plex) represent the tails added in order to obtain the same annealing temperature

From: Comparative genomics of European avian pathogenic E. Coli (APEC)

9PLEX

Gene name

Primer sequence 5′–3′

Amplicon size

astA F

TGCCATCAACACAGTATATCC

116

astA R

TCAGGTCGCGAGTGACGGC

irp2 F

AAGGATTCGCTGTTACCGGAC

413

irp2 R

AACTCCTGATACAGGTGGC

papC F

TGATATCACGCAGTCAGTAGC

501

papC R

CCGGCCATATTCACATAA

iucD F

ACAAAAAGTTCTATCGCTTCC

714

iucD R

CCTGATCCAGATGATGCTC

tsh F

ACTATTCTCTGCAGGAAGTC

824

tsh R

CTTCCGATGTTCTGAACGT

vat F

TCCTGGGACATAATGGTCAG

981

vat R

GTGTCAGAACGGAATTGT

cvi/cva F

TGGTAGAATGTGCCAGAGCAAG

1181

cvi/cva R

GAGCTGTTTGTAGCGAAGCC

ibeA F

AGGCAGGTGTGCGCCGCGTAC

171

ibeA R

TGGTGCTCCGGCAAACCATGC

sitA F

AGGGGGCACAACTGATTCTCG

608

sitA R

TACCGGGCCGTTTTCTGTGC

  1. Cycling conditions: 95 °C for 5mins (initial denaturation), followed by 35 cycles at 95 °C for 30s (denaturation), 55 °C for 30 s (annealing), and 72 °C for 120 s (polymerization) On completion of 35 cycles, a final polymerization was performed 72 °C for 600 s
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BMC Genomics

ISSN: 1471-2164

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