TABLE 3.

L. monocytogenes strain F2365 genes upregulated in skim milk at 4°C as identified by microarray^a and real-time PCR analysis

Category and gene	Functionb	Fold changec
		Microarrayd	qRT-PCRe
Gene encoding proteins involved in transcription
lmo0153	Oligopeptide ABC transporter; oligopeptide-binding protein	4.9	163.1
lmo0154	Oligopeptide ABC transporter; permease protein	4.7	14.0
lmo1443	Transporter; NRAMP family	4.4	49.1
lmo1875	ABC transporter; manganese-binding protein	16.7	435.5
lmo1876	Manganese ABC transporter; permease protein	11.5	290.0
lmo1877	Manganese ABC transporter; ATP-binding protein	12.3	71.8
Gene encoding proteins involved in transcription
lmo0914	RNA polymerase δB factor	2.1	3.8
Gene encoding proteins involved in amino acid biosynthesis
lmo0234	Cysteine synthase A	3.7	14.8
Gene encoding proteins involved in energy metabolism
lmo1365	Glycine cleavage system T protein	3.7	10.5
Gene encoding proteins involved in central intermediary metabolism
lmo0977	Glucosamine-6-phosphate isomerase	3.2	3.3
Gene encoding proteins involved in protein synthesis
lmo2484	Ribosomal subunit interface protein	2.4	5.4
Gene encoding proteins involved in toxin production and resistance
lmo0963	Peroxide resistance protein Dpr	2.6	8.0
Gene encoding proteins involved in cell division
lmo2064	Cell division protein FtsZ	2.7	5.7
Genes encoding hypothetical or unknown proteins
lmo0243	ATP:guanido phosphotransferase family protein	2.3	2.4
lmo0703	Hypothetical protein	4.0	2.7
lmo0899	LysM domain protein	4.2	57.2
lmo0974	Conserved hypothetical protein	3.1	50.4
lmo0975	Conserved hypothetical protein	2.9	34.2
lmo1520	Conserved hypothetical protein	2.5	4.6
lmo1622	Conserved hypothetical protein	2.2	6.9
lmo1996	Conserved hypothetical protein	3.4	22.7
lmo2063	Conserved hypothetical protein	2.6	3.3
lmo2190	Conserved hypothetical protein	2.5	7.7
lmo2459	PspC domain protein	4.0	31.6
lmo2460	Conserved hypothetical protein	4.3	26.7
lmo2541	Conserved hypothetical protein	3.2	31.0

^aOnly the genes that met the stringent criteria for being upregulated in milk (i.e., change of more than twofold; P < 0.01) are listed here.

^bGene functions are based on annotations provided by TIGR (http://cmr.tigr.org/tigr-scripts/CMR/CmrHomePage.cgi).

^cChange indicates the transcript ratios between L. monocytogenes F2365 grown in milk and BHI medium at 4°C as determined by microarray and real-time PCR.

^dNumbers are average values from four independent experiments.

^eNumbers are average values from three independent experiments.