. 2012 Feb;78(3):676–683. doi: 10.1128/AEM.06150-11

Table 1.

Log₂ fold change for selected genes

Role category	Locus name	Gene symbol	Annotation	Log₂ fold change
Role category	Locus name	Gene symbol	Annotation	4 h	24 h	72 h
Cell envelope (biosynthesis and degradation of surface polysaccharides and lipopolysaccharides)	PP_0133	algB	Alginate biosynthesis transcriptional regulatory protein AlgB	2.10
	PP_1277	algA	Mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase	1.51
	PP_1278	algF	Alginate O-acetyltransferase	1.90
	PP_1279	algJ	Alginate O-acetylation protein AlgJ	1.66
	PP_1280	algI	Alginate O-acetylation protein AlgI	1.72
	PP_1287		Alginate biosynthesis protein Alg8	1.58
	PP_1288	algD	GDP-mannose 6-dehydrogenase	1.79
	PP_1427	algT	RNA polymerase sigma factor AlgT	1.89
	PP_1428	mucA	Sigma factor AlgT (AlgU) negative regulatory protein MucA	2.08
	PP_1429	mucB	Sigma factor AlgT (AlgU) regulatory protein MucB	2.06
Cellular processes (chemotaxis and motility)	PP_4358	fliM	Flagellar motor switch protein FliM			1.63
	PP_4359	fliL	Flagellar protein FliL	1.62	2.42	2.85
	PP_4370	fliE	Flagellar hook-basal body complex protein FliE	1.84	2.45	3.01
	PP_4385	flgG	Flagellar basal-body rod protein FlgG		1.50	1.77
	PP_4386	flgF	Flagellar basal-body rod protein FlgF	1.75	1.83	2.42
	PP_4390	flgC	Flagellar basal-body rod protein FlgC		1.56	2.05
	PP_4391	flgB	Flagellar basal-body rod protein FlgB		1.74	2.25
	PP_4395	flgM	Negative regulator of flagellin synthesis FlgM	1.79
Transcription	PP_1623	rpoS	RNA polymerase sigma factor RpoS	−1.98
	PP_5108	rpoH	RNA polymerase sigma-32 factor	2.17
Energy metabolism (other)	PP_3365		Acetolactate synthase, catabolic, putative	1.80	1.73	2.13
	PP_3578		Phosphoglucomutase, alpha-d-glucose phosphate specific	1.62
	PP_3613		l-Sorbosone dehydrogenase	1.88
	PP_3621		Isoquinoline 1-oxidoreductase, alpha subunit, putative	−1.66
	PP_3970		Formaldehyde dehydrogenase, glutathione independent, putative	2.19
	PP_4011	icd	Isocitrate dehydrogenase, NADP dependent, prokaryotic type	−1.53
	PP_4034		N-Carbamoyl-beta-alanine amidohydrolase, putative	−2.85
	PP_0103		Cytochrome c oxidase, subunit II	−2.13
	PP_0104		Cytochrome c oxidase, subunit I	−1.56
	PP_0105		Cytochrome c oxidase assembly protein	−1.71
	PP_0106		Cytochrome c oxidase, subunit III	−1.77
	PP_0490		Formate dehydrogenase, iron-sulfur subunit	−1.63
	PP_0552	adh	2,3-Butanediol dehydrogenase	−2.09	−1.84	−2.33
	PP_0553	acoC	Acetoin dehydrogenase, dihydrolipoamide acetyltransferase component	−2.13	−1.81	−2.50
	PP_0554	acoB	Acetoin dehydrogenase, beta subunit	−2.15	−1.76	−2.41
	PP_0555	acoA	Acetoin dehydrogenase, alpha subunit	−2.17
	PP_0556		Acetoin catabolism protein	−2.49		−2.77
	PP_0557	acoR	Acetoin catabolism regulatory protein	−1.54
	PP_0596		Beta-alanine–pyruvate transaminase	2.72
	PP_0989	gcvH-1	Glycine cleavage system H protein	1.65
	PP_0999	arcC	Carbamate kinase	−2.64
	PP_1000	argI	Ornithine carbamoyltransferase, catabolic	−3.08
	PP_1001	arcA	Arginine deiminase	−3.11
	PP_1157		Acetolactate synthase, catabolic, putative	1.95
	PP_2351		Acetyl-CoA^a synthetase, putative	−1.65
	PP_2422		Carboxymuconolactone decarboxylase family protein	−2.42
	PP_2674	qedH	Quinoprotein ethanol dehydrogenase	−1.51
	PP_2675		Cytochrome c-type protein	−2.36
	PP_4401	bkda-1	2-Oxoisovalerate dehydrogenase, alpha subunit		−1.60
	PP_5033	hutU	Urocanate hydratase	2.08
	PP_5338	aspA	Aspartate ammonia-lyase	2.37	1.63	1.69
	PP_5346	oadA	Oxaloacetate decarboxylase, alpha subunit	−1.68
Energy metabolism (biosynthesis and degradation of polysaccharides)	PP_2918		Trehalose synthase, putative	2.05
	PP_4050	glgA	Glycogen synthase	1.83
	PP_4051		Alpha-amylase family protein	1.57
	PP_4060		Alpha-amylase family protein	1.80
	Cellular processes (adaptation to atypical condition)	PP_0089	osmC	Hydroperoxide resistance protein OsmC	2.67	1.80
DNA metabolism (DNA replication, repair, and recombination)	PP_3255		Ku protein	2.33
	PP_3260		DNA ligase, ATP dependent, putative	2.04
	PP_3268		MutT/nudix family protein	2.72
	PP_3967		MutT/nudix family protein	1.68
	PP_4010	cspD	Cold shock protein CspD	−2.08
Fatty acid and phospholipid metabolism	PP_0368		Acyl-CoA dehydrogenase, putative	1.84
	PP_1996	accD	Acetyl-CoA carboxylase, carboxyl transferase, beta subunit		1.59
	PP_3264		Phospholipase family protein	2.73
	PP_4379		3-Oxoacyl-(acyl carrier protein) synthase III			1.52
	PP_5266		Acetyl-CoA hydrolase/transferase family protein	2.05
Cellular processes (adaptation to atypical condition)	PP_2326		Universal stress protein family protein	−1.64
	PP_3156		Universal stress protein family	−2.55	−1.74	−1.75
Protein fate	PP_3312		Heat shock protein, putative	−1.73
	PP_3313		Heat shock protein, putative	−2.43	−1.95	−1.77
	PP_3314		Heat shock protein, HSP20 family	−2.55	−1.80	−1.83
DNA metabolism (other)	PP_0975	hupN	DNA-binding protein HU, form N	3.08	1.58

CoA, coenzyme A.