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Table 2 Extension primers used for the iPLEX20SNP

From: A comparison of two informative SNP-based strategies for typing Pseudomonas aeruginosa isolates from patients with cystic fibrosis

SNP sitea

Gene target

UEP (5′-3′)

Mass

EP1, mass

EP2, mass

EP3, mass

EP4, mass

7

acsA

ACATCGTCTATGGCCCG

5146.4

C,5393.5

T,5473.5

  

45

acsA

ggggTCTGTTCGAGGGCGT

5931.8

A,6203

G,6219

  

322

acsA

gggtaGCGTGGGCGCCCGGCA

6529.2

T,6800.4

C,6816.4

  

381

ascA

ttcccAGCCGTTCTTCGGCGTGGT

7302.7

C,7549.9

A,7573.9

G,7589.9

T,7629.8

387

ascA

gaaGAGGTTGTCCACCAG

5548.6

G,5795.8

A,5875.7

  

416b

aroE

TGCCGTTCAAGGAAGA

4930.2

C,5177.4

A,5201.4

G,5217.4

 

aGgCGTTCAAGGAACT

488

aroE

ccCACCCTGATCCGCCT

5027.3

C,5274.5

G,5314.5

T,5354.4

 

881

aroE

gagggTGTATGCCAAGGAACCGAC

7451.9

C,7699

G,7739.1

T,7778.9

 

894

guaA

gTCCTCCAAGGTCCTGCT

5426.5

C,5673.7

A,5697.7

G,5713.7

 

937

guaA

tgtTCcgCGATGGCCTTGTGCA

6733.4

T,7004.6

C,7020.6

  

1086

guaA

gtCGAGGACAAGTTCCTCGG

6158

C,6405.2

G,6445.2

T,6485.1

 

1152

guaA

ctcaGCACCTTCATCGAAGT

6036.9

C,6284.1

G,6324.2

T,6364

 

1297

mutL

GTGGAAAGCCACGTCGAA

5557.6

T,5828.8

C,5844.8

  

1465

mutL

gggCGGCtcGCACCTGTGGGG

6520.2

C,6767.4

T,6847.3

  

1865

nuoD

agagaCAGTCtcGGCACAGTTTCAT

7666

C,7913.2

T,7993.1

  

1958

nuoD

tgctGATCACGTCGACCCGCTG

6687.3

G,6934.5

C,6974.5

  

2169

ppsA

ccggaGCGCTGGCCGATGGCACG

7091.6

G,7338.8

T,7362.8

C,7378.8

A,7418.7

2208

ppsA

CCGACACGTCGTTGATCAC

5748.7

G,5995.9

A,6075.8

  

2337

ppsA

CGCCGCGTGGCAGGT

4610

T,4881.2

C,4897.2

  

2551

trpE

CAGATCCTGCTCCAG

4512.9

G,4760.1

C,4800.2

A,4840

 
  1. Non-template bases are indicated in lower case. Mass (Daltons) is provided for the unextended extension primer (UEP), as well as associated extension products (EP) 1, 2 and where relevant 3 and 4.
  2. aSNP position is based on the 2882 bp concatenated sequence.
  3. bNote that SNP 416 had two extension primers to accommodate a known proximal SNP variation.