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Table 3 Summary of results targeting MTC polymorphic loci

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

Target Locus Node #(s) in Fig. 2 M. tuberculosis(n) M. africanumWA-1 (n) M. africanumWA-2 (n) Other MTC (n)
RD loci      
RD12can/RD12 1 1, 17 intact (18) intact (20) intact (9)  
3'cfp32 1 intact (18) intact (20) intact (9)  
TbD1 2 deleted (18) intact (20) intact (9)  
pks15/1 3, 9 7-bp deletion (18) intact (20) 6-bp deletion (9)  
PPE55 2 4, 16 intact (9)
fail (9)
intact (20) intact (9)  
MiD3/RDRio 2 (IS1561' + PPE55) 4, 16 intact (9)
fail (9)
intact (20) intact (9)  
RD9 6 intact (18) deleted (20) deleted (9)  
RD713 3 7 fail (18) deleted (20) fail (9)  
RD711 8 intact (18) deleted (20) intact (9)  
RD7 3 9 intact (18) intact (20) deleted (9)  
RD8 9 intact (18) intact (20) deleted (9)  
RD10 9 intact (18) intact (20) deleted (9)  
RD701 11 intact (18) intact (20) deleted (9)  
RD702 11 intact (18) intact (20) deleted (9)  
RD1das/RD1bcg 4 14, 19 intact (18) intact (20) intact (9)  
RD13 17 intact (18) intact (20) intact (9)  
RD4 18 intact (18) intact (20) intact (9)  
SNP loci      
narGHJI -215 2 C→T (18) no Δ (20) no Δ (9)  
katG 463 3 CTG→CGG (18) no Δ (20) no Δ (9)  
gyrA 95 5 no Δ (18) no Δ (20) no Δ (9)  
gyrB 1450 6 no Δ (18) G→T (20) G→T (9)  
TbD1197 7 fail (18) C→T (20) no Δ (9)  
aroA 285 7 no Δ (18) G→A (20) no Δ (9)  
Rv1332 523 7 no Δ (27) G→T (32) no Δ (11) no Δ (15)
katG 203 9 no Δ (18) no Δ (20) ACC→ACT (9)  
3'cfp32 311 9 no Δ (18) no Δ (20) G→A (9)  
RD13174 9 no Δ (18) no Δ (20) G→A (9)  
PPE55 2148 9 no Δ (9)
fail (9)
no Δ (20) A→G (9)  
PPE55 2154 9 no Δ (9)
fail (9)
no Δ (20) A→G (9)  
Rv1510 1129 10 no Δ (18) no Δ (20) G→A (9)  
hsp65 540 11 no Δ (18) no Δ (20) C→G (9)  
nat 751 11 no Δ (63) no Δ (32) G→A (27) no Δ (53)
rpoB 1163 12 no Δ (18) no Δ (20) C→T (9)  
rpoB 1049 13 no Δ (18) no Δ (20) no Δ (9)  
mmpL6 551 15 fail (18) no Δ (20) no Δ (9)  
Other targets      
cfp32   intact (18) intact (20) intact (9)  
  1. 1,2,3,4 pairs of partially overlapping LSPs
  2. WA, West African; Fail, no PCR amplification; bp, base pair; Δ, change