Table 2.

Carbohydrate-dependent transcriptional upregulation of specific genes^a

Gene ID	Gene name	Function	Fold upregulationb during growth on:
			Stachyose	Raffinose	Melibiose	Melezitose	Sucrose
Bbr_0026		Permease protein of ABC transporter system for sugars	—	18.55	—	4.66	23.73
Bbr_0027		Permease protein of ABC transporter system for sugars	—	13.98	—	4.55	44.95
Bbr_0030		Conserved hypothetical protein	28.53	145.75	—	86.54	216.5
Bbr_0100	SPase	Sucrose phosphorylase	74.26	74.26	—	128.18	41.71
Bbr_1855	agl1	Alpha glucosidase	—	20.43	10.74	31.95	—
Bbr_1856	melE	Raffinose synthase or seed inhibition protein	—	—	—	72.76	—
Bbr_1857	melD	Alpha glucosidase	—	—	—	94.33	—
Bbr_1858	melC	Permease protein of ABC transporter system for sugars	—	—	—	850.82	—
Bbr_1859	melB	Permease protein of ABC transporter system for sugars	—	—	—	679.07	—
Bbr_1860	melA	Solute binding protein of ABC transporter system for sugars	—	—	—	724.89	—
Bbr_1865	rafD	Raffinose transport system permease protein	21.66	98.36	105.07	—	—
Bbr_1866	rafC	Raffinose transport system permease protein	49.86	175.51	153.8	—	—
Bbr_1867	rafB	Raffinose-binding protein	24.39	86.16	92.5	—	—
Bbr_1868	rafR	Transcriptional repressor, ROK family	—	—	—	—	—
Bbr_1869	rafA	α-Galactosidase	9.23	10.53	8.07	—	—

^aBased on comparative transcriptome analysis using B. breve UCC2003 grown on 1% raffinose, stachyose, or melibiose compared to growth on ribose. Microarray data were obtained using B. breve UCC2003 grown on 1% raffinose, stachyose, or melibiose and were compared with array data obtained when B. breve UCC2003 was grown on ribose as a control.

^bThe cutoff point is 4-fold, with a P value of <0.001. —, value below the cutoff.