Skip to main content

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.