Table 3.

Genes modulated in a common fashion by PEN in S. pneumoniae R6, CCRI-8970 and CCRI-21487.

Entry no. in R6 genome database	Gene Symbol	Gene description	Condition	Log2FC (q-Value ≤ 0.05)a,b
				R6			CCRI-8970			CCRI-21487
				T1/T0	T2/T0	T3/T0	T1/T0	T2/T0	T3/T0	T1/T0	T2/T0	T3/T0
Downregulated
spr0443	glnR e	transcriptional repressor of the glutamine synthetase gene	NO PEN c	—	—	—	—	−2.53	−2.35	—	—	—
			PEN 1X MIC d	—	−1.79	−3.37	−2.08	−3.02	−2.93	—	−1.08	−2.32
spr0444	glnA e	glutamine synthetase, type I	NO PEN	—	—	—	−1.42	—	—	—	—	−1.26
			PEN 1X MIC	—	−1.62	−3.02	−1.75	−1.45	−1.65	—	−1.45	−2.82
spr1121	glnQ e	amino acid ABC transporter ATP-binding protein	NO PEN	—	—	—	−1.02	−1.55	−1.80	—	—	—
			PEN 1X MIC	—	−1.14	−1.83	−2.05	−2.63	−2.96	—	−1.10	−2.23
Upregulated
spr0307	clpL	ATP-dependent protease ATP-binding subunit	NO PEN	—	—	—	—	1.33	1.81	—	—	—
			PEN 1X MIC	—	—	2.16	1.30	2.03	2.22	—	—	1.13
spr0455	dnaK	molecular chaperone DnaK	NO PEN	1.34	—	1.08	—	1.50	1.49	—	—	—
			PEN 1X MIC	1.80	2.24	2.07	1.33	1.71	1.75	—	—	1.01
spr0456	dnaJ	molecular chaperone DnaJ	NO PEN	1.40	1.00	1.03	—	2.01	1.86	—	—	—
			PEN 1X MIC	1.57	1.91	1.73	1.80	1.97	2.10	—	—	1.15
spr1866	adh	zinc-containing alcohol dehydrogenase	NO PEN	—	—	1.03	—	—	—	—	1.11	—
			PEN 1X MIC	1.06	—	—	—	—	1.04	—	1.13	1.25
spr2011	—	ribosomal subunit interface protein	NO PEN	—	—	—	—	—	—	—	1.33	1.27
			PEN 1X MIC	—	1.40	1.94	—	—	1.06	1.31	1.55	2.15

^aPenicillin (PEN) at 1 X MIC was added at T0 and the differential gene expression was tested for three time points (T1, T2 and T3). Genes included showed significant variations of log₂ FC ≤ −1 or log₂ FC ≥ +1 with a q-value ≤ 0.05.

^b‘−’ means no significant change in expression.

^c‘No PEN’ corresponds to the genes modulated in the untreated S. pneumoniae.

^d‘PEN 1 X MIC’ corresponds to the genes modulated in the treated bacteria.

^eGenes involved in glutamine metabolism are shown in bold.