Table 2 Summary of PCR-RFA protocols used in this study¹

katG ⁴⁶³

BstNI

PGG1 MTC

12, 59, 106, 174

PGG2, PGG3 M. tuberculosis

12, 59, 280

gyrA ⁹⁵

AleI

PGG1, PGG2 MTC

161, 193

PGG3 M. tuberculosis

354

narGHJI ^-251

Sau3AI

"modern" M. tuberculosis

155

Remaining MTC

69, 86

gyrB ¹⁴⁵⁰

Taq1α

"M. canettii", M. tuberculosis

6, 21, 74, 96, 129, 270, 444

Remaining MTC

6, 21, 74, 96, 129, 163, 107, 444

katG ²⁰³

BstNI

"M. canettii", M. tuberculosis, M. africanum WA-1

140, 230

Remaining MTC (PGG1a)

370

3'cfp32 ³¹¹

BstNI

M. tuberculosis, M. africanum WA-1

28, 34, 75, 235²

Remaining MTC (PGG1a)

34, 75, 263

aroA ¹¹⁷

BssHII

M. africanum WA-1

177, 254

Remaining MTC

104, 150, 177

TbD1¹⁹⁷

TseI

M. africanum WA-1

46, 454

Remaining MTC

46, 193, 261³

Rv1510 ¹¹²⁹

NruI

M. africanum WA-2, dassie bacillus

192, 841

Remaining MTC

1033⁴

hsp65 ⁵⁴⁰

AflIII

M. africanum WA-2

49, 392

Remaining MTC

441

nat ⁷⁵¹

BcgI

M. africanum WA-2

111, 177, 208, 270

Remaining MTC

111, 208, 447

rpoB ¹⁰⁴⁹

Sau3AI

M. africanum WA-2

11, 12, 18, 69, 87, 163

Remaining MTC, M. africanum WA-2

11, 12, 18, 69, 250

rpoB ¹¹⁶³

BstUI

M. africanum clade 2

28, 332

Remaining MTC, M. africanum WA-2

28, 79, 253

mmpL6 ⁵⁵¹

Hpy166III

"M. canettii", M. tuberculosis, M. africanum WA-1, M. africanum WA-2, dassie bacillus

155, 298³

Remaining MTC

453