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Table 2 VNTR primer sequences and concentrations

From: Tandem repeat regions within the Burkholderia pseudomallei genome and their application for high resolution genotyping

Locus Name

Primer Sequence

PCR Mix

Final [Primer] uM

Dye

933 k

F: atggtggcggccgtcggcgaaaacc

1.1

0.20 *

Fam

 

R: gctcgaatgggtgtacgaagggccacgctgattc

 

0.2

 

2065 k

F: gggggacccggcgcacgacagg

1.1

0.20**

Vic

 

R: cggcgcgttgggacgatcggcttgat

 

0.2

 

2971 k

F: gcgcaagcgcgactcggccactcg

1.2

0.1

Pet

 

R: gtcgccgggcgcggggctacatcttctta

 

0.1

 

3145 k

F: ggcaggcaccgccggcatggaagc

1.2

0.2

Ned

 

R: gcgtcgcgcgtatcgatccgactgattgtacc

 

0.2

 

2666 k b

F: gctgcaagtccgccttcacgcgcatcag

2

0.13

Ned

 

R: gcggcggccggctcgagttggact

 

0.13

 

3671 k a

F: gcagcggctttggatcgcccgggttct

2

0.10*

Pet

 

R: gggccggggcgcggaagtcgaaagtt

 

0.1

 

2115 k a

F: ggtgcgtgctggtgtcgctgctgtgctatctgt

2

0.1

Vic

 

R: ggggaaggcgccggattgcccgagtt

 

0.1

 

2341 k

F: ggcttcgcacccgccccatttcagc

2

0.10**

Fam

 

R: gcaccgggcgcggcgcactcg

 

0.1

 

1500 k

F: cagagcgcggcgaggacgatcaaaaggag

2

0.10**

Fam

 

R: gccgcggctactggcgccaccattg

 

0.1

 

3091 k

F: aattcgtcggcagcgggcacggaagatg

3

0.20*

Vic

 

R: agcgggcacgcagcttgacggaacc

 

0.2

 

3152 k c

F: cggcgcggcgttcgtccggctactc

3

0.2

Pet

 

R: acgaatgcggggcccgaggttgacgatagg

 

0.2

 

3652 k

F: gattcggacggtcggccccgggtatcaa

3

0.25

Ned

 

R: gctggacgaaatccggggcgggacaaag

 

0.25

 

3564 k

F: ggccatgccgctgccgggttgagc

3

0.20*

Fam

 

R: cgcgggaagcgggttttgacgaagggtgtagttt

 

0.2

 

20 k

F: gcaccgcgagcgccgagcccgaac

4

0.20 *

Ned

 

R: gcgcccggcggccaaccctttgtcg

 

0.2

 

857 k

F: cgcgccggatacgccgtccaccag

4

0.2

Fam

 

R: acgccggcgccgcaatggctgtc

 

0.2

 

1690 k

F: cgtttcccgtttgatgcatttgcgttccctttgaa

4

2

Pet

 

R: catcgcggccgtcagaaaagttgagaaacctcgtc

 

2

 

2445 k

F: caggccgggccgtcgacgtgttcg

4

0.1

Vic

 

R: atcggggagggagggcgacgaggtgaagg

 

0.1

 

1367 k a

F: ggcgctgccgtggccggacgac

5

0.3

Ned

 

R: gccggcgaagcatcgaggcggtatg

 

0.3

 

1764 k

F: acccggtcggcacgctacggaactggttgtt

5

2

Pet

 

R: cggcggtgaactggcttggcggacctc

 

2

 

2815 k

F: cgaggacgcggctcaggtcgatgattttcagg

5

0.1

Fam

 

R: cggcgggcgggctttgcatgtcgt

 

0.1

 

2170 k

F: cgcatcggcgcaacgtcgtcatctcgt

6.1

0.10*

Fam

 

R: cggcgaccgcgcagggcagttga

 

0.1

 

389 k

F: gttacaagcgcgggtcggcaagaggctgaaa

6.1

0.10*

Vic

 

R: gccggtgttgaacgagtgggtggcgtaagc

 

0.1

 

1788 k

F: gcgcggcgagaacggcaagaacgaa

6.2

0.10*

Pet

 

R: gagcatcgggtgggcggcgcgtattgat

 

0.1

 

1217 k a

F: gcgagatgcgggcgtgtgcggtgtg

6.2

0.2**

Ned

 

R: gcggcggccgtgagcctgctgagaatc

 

0.2

 

397 k

F: cgcacgcgggcaggccgagacg

7

0.20**

Fam

 

R: gcggtcgcgcccttccacgcttcatc

 

0.2

 

2050 k

F: ccggcggccgcttcgtcgtctcg

7

0.2

Pet

 

R: cgcgaagtcgatccgcaactgcctgctcac

 

0.2

 

2862 k a

F: gattcggcgcggtccgtaccagcttgttgc

7

0.3

Vic

 

R: gcgcggggtatgtgacggggcagagc

 

0.3

 

140 k a

F: gcgcgcaccggccgcttcgactgacga

8

0.3

Fam

 

R: gcatacggtcgcgccgggcgggtggtaggaag

 

0.3

 

2356 k

F: ccgctgatcggcgtgctgacggtgtt

8

0.2

Ned

 

R: gctcggggcgctcggcgttctctg

 

0.2

 

2518 k a

F: caggcgcagttgtcgattgacgggtgtggac

8

0.2

Vic

 

R: acggcgggatgtgcgcggtctgacg

 

0.2

 

2124 k a

F: ctgcgcgtgctgcccggcgtcac

9

0.2

Vic

 

R: cgcgtggcggaatgcgcatgatagg

 

0.2

 

1934 k c

F: cgacgtgatccgcggctatctcgaagacg

9

0.2

Pet

 

R: ccgacgcggcttgccagcttggatcgttag

 

0.2

 
  1. * 50% unlabeled Forward primer
  2. ** 75% unlabeled Forward primer
  3. a Not recommended for globally diverse isolates
  4. b Not used in phylogenetic analysis due to < 80% amplification
  5. c Locus reported in Liu et al. 2006 [22]
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BMC Microbiology

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