Skip to main content

Table 4 Primers for PCR amplification of CGF 40 markers a

From: Development of a comparative genomic fingerprinting assay for rapid and high resolution genotyping of Arcobacter butzleri

 

Product siz e (bp)

Primer forward (5′ to 3′)

Primer reverse (5′ to 3′)

Concentration b (μM)

Multiplex 1

150

GCATCCTCTTCCTCCATCAT

TCGAATAAATCCCCTACCCTT

12

250

ATACACCACCAGATGAGCTG

TAACGTACCGCATCCATTGA

10

400

AGTGCCCGTTCTATTGGTAT

GCATAAAGAGCTTCTCCTCC

8

500

ACTCTTCCCGAATCTGCAAT

TCTCCAATTCCTTGTCCTATTGT

10

600

AGTCATGCAATCCTAACGAGA

AGGAGCCTACTATGTACCTCT

10

Multiplex 2

150

TTTTCATTGGGAAGAAGAATTTAGT

TCCAATTCATAAATATCTCTTGGTGA

12

250

TCTTTTAAAGAAGACAGCTGTAGT

TTTTGCAACACCTAATCTTGC

18

350

TGATACAGGAATTATAAGAAGTGTTCC

GCATGAACTTCAACTCCAGG

5

450

TGGAAATGACAGAGGATGGT

AGTAACGGATGAGCTTTTAAATTT

8

600

TTGGGCTATTATGTCCCCAG

TCGTACAACTGGCATAGCTT

7

Multiplex 3

200

CCTCAACTTCTAACAGCAGG

CTCACATCACCCAATCCACT

8

300

TGGAATATCATAAACCAAAAATTGTTT

TTCATTGCAAATCCGCCTTT

10

450

ACAGCATCCTTGATTCTAGCA

GTGTAATCATAGCCCAAATCCA

12

550

TGAAATAATGAATGAACACAATAGCA

GTGCACAACCTAAAACCTCA

10

700

GACAGGAACAGAGGGAAGTC

AGCATCTTTATTTGTCGCACT

10

Multiplex 4

200

TGATGAAACACTAGAAAATAAGGCT

CCAGTAAAACCTCTGTCAGC

11

350

TCACTTTTAGGTACTCACGACT

GCTATAAAACTTGCACCTTTATCG

9

450

CAAAGATTTCTACGGGAAATTTGT

ACATCCTTTGCCTCTTTAAAAGA

9

550

TCGAGGACAAGCAGATTCAA

GCCATTTCTACTTCCATTGTGT

7

700

ACAGCAGTAACATTACAGGG

TCAAAAGCAATTCCACCACT

11

Multiplex 5

150

TCTATAGGTGCTGACCCACT

GCCGCAATACTTCCAAAACT

9

250

TTTACAGGAGCTTGGACATCA

TTTTACCATCATCTTCAACCCA

9

400

CATCGTCCTTCAGTCGAATAT

GGAAACCATTTTCTTTTGCCA

9

550

GTCATTTTTACACCACCTGCA

TCAAAACGCTTAGCCAAATCT

12

700

ACTTTTTGCTTCTCAAAGTAGAAC

CCTCTGAAAAATTGAAATAATATACCC

10

Multiplex 6

150

GGTTGGGGAAAACTGCTTTT

TCTCTTGATTTTTAGTTTCAATCTCT

10

250

TGCTATGGGTGCAATGGTTA

AAGATTCTAGCAACACCCGA

8

400

TGGGGACATGAAAACTGGAA

TTCACATACTTTCTCAGGCATT

10

550

ACTATGGCTATATATGCGAAGAAA

TCCATAAATGTTTCAACTCAGGA

10

650

GGAATTGCCGAGTTTACACG

TGAGCTCCATGTTGTATTGGA

10

Multiplex 7

200

ACTCCATTTGTGCTTATTGGA

TCTTGAACTAGCCAAAAGTGC

10

350

TCGAAATATCTTTTAGCTTCAAGAA

AAAACATCATTTTCTTTTGCCCA

10

450

AGAGTTTGGATGGAAAACTGT

TGCAACTATTCCATCAAAACCA

10

550

GGTTCAACACCAGGAACAAA

TGCAACACCTATCATCTCATTT

10

700

GGAAAAGGCAAAGAATCCTCA

ACCATCGCCAGACTTCATTA

10

Multiplex 8

150

TGCAAGAAATGGTGGAACAA

CCTGTTGCAATAGTTGGTGT

10

250

TGGTAGAAGAAACAATAAAAAGATTTG

AGTCTTGATTTATCGACAGTTCT

10

350

TTTTGTTTGAAGCTTATTCGTGA

AGTCCATATCCTTTCTCTCTCA

8

450

AGGAGCTGTTGAGATTTTCAA

GTCGTTGCTCATCTGCTTTT

7

550

GATGCTGGATTTTGTATGGCT

AGCCAAGAAACTTTCAATATCTCT

10

  1. aPrimer pairs were selected and grouped into multiplexes using Primer3 [56], multiPLX [57], and CGF Multiplexer [25].
  2. bMultiplex primer pair concentrations were optimised for Ta = 60°C.