TABLE 1.

Expression ratios of functional groups

Functional group	No. of genesa
	Total	Minimal glucose vs Luria broth plus glucose		Minimal glucose vs minimal gluconate
		Higher on minimal	Higher on LB	Higher on glucose	Higher on gluconate
Whole genome	4,290	225	119	80	82
Amino acid biosynthesis	97	22	0	3	0
Biosynthesis of cofactors, prosthetic groups, and carriers	106	9	1	0	2
Carbon compound catabolism	124	3	0	1	2
Cell processes	170	19	2	5	1
Cell structure	85	2	0	8	0
Central intermediary metabolism	149	15	1	4	5
DNA replication, repair, restriction/modification	105	1	0	1	1
Energy metabolism	136	14	5	4	3
Fatty acid and phospholipid metabolism	41	2	7	0	0
Hypothetical, unclassified, unknown	1,428	43	26	10	30
Nucleotide biosynthesis and metabolism	66	6	5	0	3
Phage, transposon, or plasmid	91	5	1	0	9
Putative cell structure	43	1	0	2	0
Putative enzymes	453	12	8	7	4
Putative factors	67	3	0	3	0
Putative membrane proteins	54	4	0	1	0
Putative regulatory proteins	167	11	0	4	1
Putative transport proteins	291	14	3	2	8
Regulatory function	208	14	3	6	3
Transcription, RNA processing, and degradation	28	0	1	0	1
Translation and posttranslational modification	128	0	53	6	1
Transport and binding proteins	254	24	2	13	8

^aNumber of genes showing significant (99% confidence) log expression ratios (≥±0.400).