Table 1.

Genes encoding proteins from the benzoate-CoA ligation pathway that were upregulated according to microarray and qRT-PCR analyses during growth on 1 mM benzene (experimental condition) and 10 mM acetate or 1 mM benzoate (control conditions) provided as the electron donor and Fe(III) citrate (55 mM) provided as the electron acceptor

Gene ID	Gene annotation	Gene name	Fold change (mean ± SD)a
			Benzene vs acetate		Benzene vs benzoate
			Microarray	qRT-PCR	Microarray	qRT-PCR
Ferp_1031	Didehydro-pimeloyl-CoA hydratase	dph	3.72	6.80 ± 2.35	ND	1.22 ± 0.32
Ferp_1035	Cyclohex-1-ene-1-carboxyl-CoA hydratase	badK1	ND	2.11 ± 0.98	ND	1.35 ± 0.55
Ferp_1040	2-Ketocyclohexanecarboxyl-CoA hydrolase	badI	ND	2.75 ± 1.35	ND	1.24 ± 0.64
Ferp_1041	2-Hydroxy-glutaryl-CoA reductase, component A	hgdC	2.38	4.15 ± 1.65	−2.61	−3.17 ± 1.53
Ferp_1042	2-Hydroxy-glutaryl-CoA reductase, component D	hgdA	2.42	9.30 ± 3.27	ND	1.01 ± 0.80
Ferp_1043	2-Hydroxy-glutaryl-CoA reductase, component D	hgdB	ND	2.25 ± 0.76	ND	1.26 ± 0.88
Ferp_1044	Benzoate-CoA ligase	bcl1	3.01	7.32 ± 2.16	ND	1.99 ± 0.23
Ferp_1180	Ferredoxin	fdx	3.54	11.80 ± 2.34	ND	1.75 ± 0.57
Ferp_1184	Benzoyl-CoA reductase, gamma subunit	bzdN	3.83	5.32 ± 3.12	ND	1.44 ± 0.49
Ferp_1185	Benzoyl-CoA reductase, beta subunit	bzdO	2.01	5.23 ± 2.96	ND	1.23 ± 0.21
Ferp_1186	Benzoyl-CoA reductase, delta subunit	bzdP	3.62	9.81 ± 3.75	ND	1.96 ± 0.35
Ferp_1187	Benzoyl-CoA reductase, alpha subunit	bzdQ	ND	2.27 ± 1.18	ND	1.89 ± 0.77
Ferp_1233	2-Hydroxycyclohexanecarboxyl-CoA dehydrogenase	badH	2.62	5.65 ± 2.33	ND	1.76 ± 0.50
Ferp_1543	Carboxylase-like protein	ppcX1	ND	0.96 ± 0.32	ND	1.24 ± 0.45
Ferp_1566	Pimeloyl-CoA dehydrogenase (large subunit)	pimC	ND	2.41 ± 1.31	ND	1.11 ± 0.62
Ferp_1579	Pimeloyl-CoA dehydrogenase (small subunit)	pimD	ND	2.25 ± 1.77	−2.14	−4.77 ± 2.11
Ferp_1630	Carboxylase UbiD-like protein	ppcX2	2.98	5.63 ± 1.46	2.53	5.65 ± 2.15

^aResults were obtained from triplicate biological and technical replicates. A negative sign represents a negative fold change in expression. ND, no difference in gene expression.