Genome-wide dynamics of a bacterial response to antibiotics that target the cell envelope

BMC Genomics

Table 1 Comparison of genes significantly induced following drug treatment with in-house curated lists of genes.

Entity list	Genes in entity list present on microarray	Vancomycin-induced (744 genes)		Bacitracin-induced (481 genes)		Moenomycin-induced (616 genes)		Induced by all (243 genes)
		Genes in entity list matched with induced genes	P-Value	Genes in entity list matched with induced genes	P-Value	Genes in entity list matched with induced genes	P-Value	Genes in entity list matched with induced genes	P-Value
SigB regulon	87	39	<1E-33	33	<1E-34	42	<1E-10	29	<1E-11
Heat shock regulon	119	51	<1E-33	27	3.13E-09	43	<1E-10	26	<1E-11
ppGpp-induced genes	98	50	1.46E-25	42	<1E-34	28	1.48E-09	20	<1E-11
Gas vesicle 1	8	8	7.71E-09	7	2.81E-08	7	1.58E-07	7	2.33E-10
SigE operon	4	4	8.87E-05	4	1.54E-05	4	4.16E-05	4	9.92E-07
Ectoine biosynthesis	4	4	8.87E-05	4	1.54E-05	4	4.16E-05	4	9.92E-07
CDA	47*	39	1.96E-32	35	6.87E-33	11	0.00100	11	1.67E-07
Peptidoglycan biosynthesis (external)	16	8	4.87E-05	5	0.00234	5	0.00686	4	0.001335
Sigma factors	64	14	0.00283	14	3.23E-05	11	0.01230	8	8.76E-04
Red	23*	23	3.83E-24	9	5.25E-06
Wbl	10	5	0.00142	3	0.02123
SsgA like	8	4	0.00450	3	0.01089
Cell wall hydrolyases	57			9	0.00856	14	1.23E-04
ppGpp-repressed genes	189					28	0.00111
Resuscitation-promoting factors	7					5	6.09E-05
Gly Ser Thr biosynthesis	35					9	0.00140
NRPS type II FAS	10					4	0.00589
Amino acid metabolism	184					24	0.01225
SigR regulon	26					6	0.01517
Hopanoids	13					4	0.01651
Amino acid transport	34					7	0.01675	4	0.0217
Methionine biosynthesis	9					3	0.03018
Lysine bioysnhtesis	16					4	0.03468
Val Leu Ile biosynthesis	25					5	0.04587
Sensor kinase	48			10	6.56E-04
Response regulators	94			11	0.0329
Zur regulon	22	19	5.50E-17
van cluster genes	7	7	8.00E-08
Coelibactin	13	7	8.11E-05

ISSN: 1471-2164