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Table 1 New primers used in this study.

From: Distinct genotypic profiles of the two major clades of Mycobacterium africanum

Target Locus Primer Name Nucleotide Sequence PCR Program Size (bp)1
New 3-primer combinations
RD8 RD8flnkF 5' CAT GCT AAG CAG ATC GTC AGT TTT GA 3' 1a, 1b 289/485
  RD8iF 5' GCC GCA TTG TCG GGG TGC GAT TCC CAC ACC 3'   
  RD8flnkR 5' CGG TTC CGG CGG GCT CCG GAT TGC TGT ACT 3'   
RD9 RD9flnkF 5' ACT CCC AGC GCT CGG CGG TGA CGG TAT CGT 3' 1a, 1b 293/499
  RD9iR 5' ATT CCG TGG GCG CTG CGG CCA ATG TTT GTT 3'   
  RD9flnkR 5' GTG GCT CGG CAC GCA CAA CTC GTT CAA CAG 3'   
RD10 RD10flnkF 5' GCG CCA CCT CGG CCG GAT TCC TGC AAC CAT 3' 1a, 1b 291/478
  RD10iR 5' TTC GGC CTT GCC GTC ATA GCG CAA TAG CGA 3'   
  RD10flnkR 5' CTC GGC GGC AAG TCG GCG GCC ATC ATT CTC 3'   
RD701 RD701flnkF 5' ACT CGC CGG CTG TGC AGG TGG TCG TT 3' 1a, 1b 350/487
  RD701iR 5' CCA AAA TTG TCG CCC TTC AGT GCG GTA TCC 3'   
  RD701flnkR 5' GAG GGG CAG CGC GGG GAA GTC G 3'   
TbD1 TbD1flnkF 5' CTA CCT CAT CTT CCG GTC CA 3' 1a, 1b 298/485
  TbD1iF 5' AAG GAA CTG CGA GAT AGG ATC GCC AAT TTC 3'   
  TbD1flnkR 5' CAT AGA TCC CGG ACA TGG TG 3'   
New primers for PCR-RFA
Rv1332 523 Rv1332F 5' GCC CTG CGC AGC CTG CAC GAA CCT GAG ATT 3' 1a, 1b 344
  Rv1332R 5' GGA TGC CCC CGA CGT CGG TGA TGG AGT TCA 3'   
nat 751 nat751F 5' ACC CGG CAT CGA AGT TCG TCA CGG GAC TGA 3' 2a, 2b 766
  nat751R 5' TGG TGT ACC AGG GGG CAC CGC AAA CCA G 3'   
New amplification primers
nat natF 5' ATC GGT GCG ACA TAG TTG G 3' 2a, 2b 1069
  natR 5' GCC TTC TGC TCA AAG TTG CT 3'   
Additional sequencing primers
nat natiF 5' CAC CGA CCT CAC CGC TTC 3'   
  natiR 5' GTC CTC GAG CCG ATA AGG TT 3'   
Corrected primer from ref. 7
katG 203 katG203R 5' CAA GAA GCT CTC ATG GGC GGA CCT GAT TGT 3'   
  1. 1 for RD loci, expected band sizes given as intact/deletion present