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Table 2 Multiplex primer

From: Sequential multiplex PCR assay for determining capsular serotypes of colonizing S. pneumoniae

Name

Sequences (5' → 3')

Amplicon size

1-f

CTC TAT AGA ATG GAG TAT ATA AAC TAT GGT TA

280

1-r

CCA AAG AAA ATA CTA ACA TTA TCA CAA TAT TGG C

 

3-f

ATG GTG TGA TTT CTC CTA GAT TGG AAA GTA G

371

3-r

CTT CTC CAA TTG CTT ACC AAG TGC AAT AAC G

 

4-f

CTG TTA CTT GTT CTG GAC TCT CGA TAA TTG G

430

4-r

GCC CAC TCC TGT TAA AAT CCT ACC CGC ATT G

 

6-f

AAT TTG TAT TTT ATT CAT GCC TAT ATC TGG

250

6-f

TTA GCG GAG ATA ATT TAA AAT GAT GAC TA

 

6C-f

CAT TTT AGT GAA GTT GGC GGT GGA GTT

727

6C-r

AGC TTC GAA GCC CAT ACT CTT CAA TTA

 

7C/B (40)-f

CTA TCT CAG TCA TCT ATT GTT AAA GTT TAC GAC GGG A

260

7C/B (40)-r

GAA CAT AGA TGT TGA GAC ATC TTT TGT AAT TTC

 

7A/F-f

CCT ACG GGA GGA TAT AAA ATT ATT TTT GAG

826

7A/F-r

CAA ATA CAC CAC TAT AGG CTG TTG AGA CTA AC

 

9A/V-f

CTT CGT TAG TTA AAA TTC TAA ATT TTT CTA AG

753

9A/V-r

GTC CCA ATA CCA GTC CTT GCA ACA CAA G

 

10A-f

GGT GTA GAT TTA CCA TTA GTG TCG GCA GAC

628

10A-r

GAA TTT CTT CTT TAA GAT TCG GAT ATT TCT C

 

11A/D/F-f

GGA CAT GTT CAG GTG ATT TCC CAA TAT AGT G

463

11A/D/F-r

GAT TAT GAG TGT AAT TTA TTC CAA CTT CTC CC

 

12F (12A/B, 44, 46)-f

GCA ACA AAC GGC GTG AAA GTA GTT G

376

12F (12A/B, 44, 46)-r

CAA GAT GAA TAT CAC TAC CAA TAA CAA AAC

 

14-f*

GAA ATG TTA CTT GGC GCA GGT GTC AGA ATT

189

14-r*

GCC AAT ACT TCT TAG TCT CTC AGA TGA AT

 

15A/F-f

ATT AGT ACA GCT GCT GGA ATA TCT CTT C

434

15A/F-r

GAT CTA GTG AAC GTA CTA TTC CAA AC

 

15B/C-f

TTG GAA TTT TTT AAT TAG TGG CTT ACC TA

496

15B/C-r

CAT CCG CTT ATT AAT TGA AGT AAT CTG AAC C

 

16F-f

CTG TTC AGA TAG GCC ATT TAC AGC TTT AAA TC

988

16F-r

CAT TCC TTT TGT ATA TAG TGC TAG TTC ATC C

 

17F-f

TTC GTG ATG ATA ATT CCA ATG ATC AAA CAA GAG

693

17F-r

GAT GTA ACA AAT TTG TAG CGA CTA AGG TCT GC

 

18-f

CTT AAT AGC TCT CAT TAT TCT TTT TTT AAG CC

573

18-r

TTA TCT GTA AAC CAT ATC AGC ATC TGA AAC

 

19A-f

GTT AGT CCT GTT TTA GAT TTA TTT GGT GTT GT

478

19A-r

GAG CAG TCA ATA AGA TGA GAC GAT TGT TAG

 

19F-f

GTT AAG ATT GCT GAT CGA TTA ATT GAT ATC C

304

19F-r

GTA ATA TGT CTT TAG GGC GTT TAT GGC GAT AG

 

22-f

GAG TAT AGC CAG ATT ATG GCA GTT TTA TTG TC

643

22-r

CTC CAG CAC TTG CGC TGG AAA CAA CAG ACA AC

 

23A-f***

TAT TCT AGC AAG TGA CGA AGA TGC G

722

23A-r***

CCA ACA TGC TTA AAA ACG CTG CTT TAC

 

23B-f**

TTG TTA GTG GTA TTA AAT TGG GGA CTA CTA GG

216

23B-r**

ATA CCT ATC TGA AGT GTT ATT AAC CCA CCA AC

 

23F-f

GTA ACA GTT GCT GTA GAG GGA ATT GGC TTT TC

384

23F-r

CAC AAC ACC TAA CAC TCG ATG GCT ATA TGA TTC

 

24A/F-f**

TCT CAA CCA AGA TAC AGA TTT TGA TTT TAC TC

686

24A/F-r**

TAT AAA CCT TTA GTA AAC ACT CTG CTT GAT CG

 

31-f

GGA AGT TTT CAA GGA TAT GAT AGT GGT GGT GC

701

31-r

CCG AAT AAT ATA TTC AAT ATA TTC CTA CTC

 

33F (33A/37)-f

GAA GGC AAT CAA TGT GAT TGT GTC GCG

338

33F (33A/37)-r

CTT CAA AAT GAA GAT TAT AGT ACC CTT CTA C

 

34-f

GCT TTT GTA AGA GGA GAT TAT TTT CAC CCA AC

408

34-r

CAA TCC GAC TAA GTC TTC AGT AAA AAA CTT TAC

 

35A (35C/42)-f***

ATT ACG ACT CCT TAT GTG ACG CGC ATA

280

35A (35C/42)-r***

CCA ATC CCA AGA TAT ATG CAA CTA GGT T

 

35B-f

GAT AAG TCT GTT GTG GAG ACT TAA AAA GAA TG

677

35B-r

CTT TCC AGA TAA TTA CAG GTA TTC CTG AAG CAA G

 

35F (47F)-f

GAA CAT AGT CGC TAT TGT ATT TTA TTT AAA GCA A

517

35F (47F)-r

GAC TAG GAG CAT TAT TCC TAG AGC GAG TAA ACC

 

38 (25A/F)-f

CGT TCT TTT ATC TCA CTG TAT AGT ATC TTT ATG

574

38 (25A/F)-r

ATG TTT GAA TTA AAG CTA ACG TAA CAA TCC

 

cpsA-f

GCA GTA CAG CAG TTT GTT GGA CTG ACC

160

cpsA-r

GAA TAT TTT CAT TAT CAG TCC CAG TC

 
  1. The majority of primer sequences are available on the CDC website (http://www.cdc.gov/ncidod/biotech/files/pcr-oligonucleotide-primers-March2010.pdf); *, ** and *** indicate primer sequences published by [25, 26], CDC website respectively. The name of each primer has been modified accordingly to the results obtained with the primer blast software.