TABLE 1.

Genes regulated by RR09 in both D39 and TIGR4^a

Gene	Annotation	Ratiosb
		D39			TIGR4
		OD600 = 0.1	OD600 = 0.2	OD600 = 0.6	OD600 = 0.1	OD600 = 0.2	OD600 = 0.6
Commonly regulated
sp0875	Lactose phosphotransferase system repressor, lacR	−0.06	−0.51	3.93	−0.44	−0.09	1.46
sp0876	1-Phosphofructokinase, putative	−0.12	−0.33	3.74	−0.40	−0.08	1.37
sp0647	PTS, galactitol-specific IIC, putative	−2.40	−2.48	NAc	0.11	−0.17	−1.11
sp0648	Beta-galactosidase, bgaA	−3.26	−3.47	NA	−0.02	0.82	−1.80
sp1804	General stress protein 24, putative	−1.05	−0.66	NA	−1.39	−0.55	−1.04
sp1883	Dextran glucosidase dexS, putative	−1.55	−2.47	NA	−0.26	0.28	−1.45
sp1884	Trehalose PTS, IIABC components	−1.19	−1.50	NA	0.03	0.11	−1.87
Oppositely regulated
sp0090	ABC transporter, permease protein	NA	0.36	−2.01	2.38	0.21	NA
sp0501	Transcriptional regulator, glnR	NA	NA	1.51	−0.10	−1.06	NA
sp0964	Dihydroorotate dehydrogenase B, pyrD	0.82	1.36	NA	−1.00	−1.05	NA
sp1278	Pyrimidine operon regulatory protein, pyrR	1.45	1.50	NA	−2.93	−1.22	NA
sp2141	Glycosyl hydrolase-related protein	−0.05	0.01	−3.62	1.96	0.17	NA

^aCommonly regulated genes showed the same expression pattern in D39 and TIGR4, while oppositely regulated genes were found to be upregulated in the rr09 mutant in one strain and downregulated in the other.

^bThe values are log₂(expression in Δrr09 mutant/expression in wild type) values. The values in bold type are the values for genes that are considered to be differentially expressed.

^cNA, no valid data were acquired.