Table 3.

Mutational analysis of the plcABC genes from 15 publicly available whole genome M. tuberculosis isolates and 8 non-M. tuberculosis MTBC members.

Isolate	plcA	plcB	plcC	Comment
M. bovis	Deleted	Deleted	Deleted	plcABC part of the RD5 region (Figure 3).
M. bovis BCG	Deleted	Deleted	Deleted	plcABC part of the RD5 region (Figure 3).
CPHL_A	sSNP A → C at position 435.	+	+	All genes predicted to be fully functional.
K85	sSNP A → C at position 435.	+	nsSNP C → T (Thr → Ile) at aa position 302. sSNP G → A at position 1506.	plcC function possibly impaired.
GM041182	sSNP A → C at position 435.	+	+	All genes predicted to be fully functional.
M. microti	Deleted.	Deleted	5' 867 bp deleted.	plcABC part of the RD5mic region (Figure 3).
Oryx bacillus	Deleted	5' 260 bp deleted.	+‡	plcAB part of the RD5oryx region (Figure 3).
Dassie bacillus	Deleted	Deleted	Deleted	plcABC part of the RD5das region (Figure 3).
T17	sSNP A → C at position 435.	IS6110 insertion at position 1307.	+	plcB function predicted to be abolished.
EAS054	sSNP A → C at position 435.	sSNP G → A at position 1404.	+	All genes predicted to be fully functional.
T92	Deleted	Deleted	5' 194 bp deleted.	Major deletion results in removal of plcA, plcB and 5' region of plcC (Figure 3).
94_M4241A	Deleted	5' 793 bp deleted.	sSNP T→ C at position 753.	IS6110-associated recombination event has deleted plcA and 5' region of plcB (Figure 3).
02_1987	Deletion of 3' end of plcA and 5' end of plcB creates hybrid plcA/B gene. Fusion point at position 145. Results in frameshift and premature protein termination.		sSNP T→ C at position 753.	Hybrid plcA/B gene predicted to be non-functional. Part of massive genome rearrangements seen in this isolate (Figure S23).
T85	sSNP G → A at position 705. nsSNP T → A (thr → ala) at position 1336.	+	sSNP T → C at position 753. nsSNP G → T (gly → cys) at position 1081.	plcA and plcC functions possibly impaired.
KZN 4207	+	+	+	Total homology to H37Rv.
KZN 1435	+	+	+	Total homology to H37Rv.
KZN 605	+	+	+	Total homology to H37Rv.
F11	+	+	+	Total homology to H37Rv.
Strain C	T insertion at position 104. Altered reading frame and premature protein termination.	+	+	plcA function predicted to be abolished.
CDC1551	+	+	+	Total homology to H37Rv.
Haarlem	A insertion at position 968. Altered reading frame and premature protein termination.	+	+	plcA function predicted to be impaired.
H37Rv	+	+	+	Defined as wild type sequence
H37Ra	+	+	+	Total homology to H37Rv.

+ indicates complete homology to the H37Rv reference sequence.

^‡Deletion mapping studies indicates that the plcC gene of the Oryx bacilli is present [23]. The exact sequence of the gene in this species is unknown however.