Table 4.

List of homologous genes regulated by (p) ppGpp in opposite ways in PstDC3000 and PssB728a

Locus tag		Gene description	(p)ppGpp0PstDC3000/PstDC3000	(p)ppGpp0PssB728a/PssB728a
DC3000	B728A
PSPTO_1432	PSYR_1246	type IV pilus biogenesis protein PilF	1.29	−0.85
PSPTO_1940	PSYR_3475	flagellar basal-body rod protein FlgG	0.45	−1.27
PSPTO_1941	PSYR_3474	flagellar L-ring protein FlgH	0.61	−1.36
PSPTO_1973	PSYR_3443	flagellar biosynthetic protein FliQ	0.22	−1.36
PSPTO_1942	PSYR_3473	flagellar P-ring protein FlgI	0.36	−1.43
PSPTO_1713	PSYR_3676	cobyric acid synthase CobQ	1.82	− 0.20
PSPTO_1714	PSYR_3675	cobinamide kinase/cobinamide phosphate guanylyltransferase CobP	1.56	−0.57
PSPTO_1717	PSYR_3672	cobalamin (5\’-phosphate) synthase CobS	1.02	−1.04
PSPTO_1715	PSYR_3674	nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase CobT	1.66	−1.08
PSPTO_0352	PSYR_4822	nitrogen regulation protein NR(I) NtrC	−0.60	1.61
PSPTO_0353	PSYR_4821	nitrogen regulation protein NtrB	−0.29	2.47
PSPTO_3315	PSYR_3149	general secretion pathway protein G, GspG	−0.67	1.69
PSPTO_3314	PSYR_3148	general secretion pathway protein H, GspH	−0.70	1.40
PSPTO_3317	PSYR_3151	general secretion pathway protein E	−0.36	1.36
PSPTO_3316	PSYR_3150	general secretion pathway protein F, GspE	−0.69	1.34
PSPTO_3313	PSYR_3147	general secretion pathway protein I, GspI	−0.93	1.09
PSPTO_3312	PSYR_3146	general secretion pathway protein J, GspJ	−1.01	0.80
PSPTO_3307	PSYR_3141	general secretion pathway protein D, GspD	−1.18	0.11

DEGs were differentially expressed genes in the (p)ppGpp⁰_PstDC3000 and (p)ppGpp⁰_PssB728a with p-value < 0.05 between the WT and the (p)ppGpp⁰ mutants