Table 2. Enriched functional clusters of differential proteins discussed in the text.

Gene	Synonym	Reg	Functional_category	Product	log2 fold	p-value
transporter activity (GO:0005215)
fadD15	Rv2187	over	Lipid metabolism	long-chain-fatty-acid–CoA ligase FadD15	0.64	0.049358831
–	Rv2971	over	Intermediary metabolism and respiration	oxidoreductase	0.5	0.041065417
–	Rv0073	under	cell wall and cell processes	glutamine ABC transporter ATP-binding protein
–	Rv0143c	under	cell wall and cell processes	transmembrane protein
pstB	Rv0933	under	cell wall and cell processes	phosphate ABC transporter ATP-binding protein PstB	−2.41	4.65402E-07
pstS1	Rv0934	under	cell wall and cell processes	phosphate ABC transporter substrate-binding lipoprotein PstS	−1.12	0.00155862
oppD	Rv1281c	under	cell wall and cell processes	oligopeptide ABC transporter ATP-binding protein OppD	−0.6	0.045017563
atpA	Rv1308	under	Intermediary metabolism and respiration	ATP synthase subunit alpha	−0.46	0.001330189
atpD	Rv1310	under	Intermediary metabolism and respiration	ATP synthase subunit beta	−0.66	0.00060944
glnQ	Rv2564	under	cell wall and cell processes	glutamine ABC transporter ATP-binding protein	−0.76	0.00036177
–	Rv2690c	under	cell wall and cell processes	integral membrane protein
lipid metabolic process (GO:0006629)
fadD15	Rv2187	over	Lipid metabolism	long-chain-fatty-acid–CoA ligase FadD15	0.64	0.049358831
–	Rv2277c	over	Intermediary metabolism and respiration	glycerolphosphodiesterase
agpS	Rv3107c	over	Lipid metabolism	alkyldihydroxyacetonephosphate synthase	3.5	0.022585521
hsaA	Rv3570c	over	Intermediary metabolism and respiration	flavin-dependent monooxygenase oxygenase subunit HsaA	1	0.043815093
rmlA	Rv0334	under	Intermediary metabolism and respiration	glucose-1-phosphate thymidylyltransferase	−1.41	7.01184E-05
pks6	Rv0405	under	Lipid metabolism	membrane bound polyketide synthase
fadB2	Rv0468	under	Lipid metabolism	3-hydroxybutyryl-CoA dehydrogenase	−1.33	2.15157E-07
fadB	Rv0860	under	Lipid metabolism	fatty oxidation protein FadB	−0.47	0.008655458
echA6	Rv0905	under	Lipid metabolism	enoyl-CoA hydratase EchA6	−0.96	0.002614821
fadD21	Rv1185c	under	Lipid metabolism	fatty-acid–CoA ligase FadD21	−1.35	0.004873026
–	Rv3230c	under	Intermediary metabolism and respiration	stearoyl-CoA 9-desaturase electron transfer partner	−1.38	0.03233442
dprE2	Rv3791	under	Lipid metabolism	decaprenylphosphoryl-D-2-keto erythropentose reductase	−0.85	0.003881878
pks2	Rv3825c	under	Lipid metabolism	phthioceranic/hydroxyphthioceranic acid synthase	−1	0.03160682