TABLE 1.

Relative fold differences in levels of transcripts of housekeeping genes and clpE as determined by microarray analysis

Gene locus (common name)a	Relative fold differences in transcript levels for cells grown atb:
	16 and 37°C		30 and 37°C		42 and 37°C
	Probe 1	Probe 2	Probe 1	Probe 2	Probe 1	Probe 2
lmo0490 (aroE)	2.3	1.5
lmo0257 (rpoB)	−4.2	−3.8	−2.9	−2.2
lmo1064 (corA)	1.4	1.6
lmo1093 (nadE)	1.5	1.5
lmo1327 (rbfA)	1.9	1.8
lmo1403 (mutS)	−2.3	−2.3
lmo2459 (gap)	10.9	33.6
lmo0997 (clpE)			−1.8	−1.6	20.9	22.6

^aGene names are based on the annotation of the L. monocytogenes EGD-e genome available from the NCBI (accession number AL591824; http://www.ncbi.nlm.nih.gov).

^bThe relative difference in transcript levels based on the microarray data was calculated using Bioconductor for R by dividing the average spot intensity for L. monocytogenes 10403S at the first temperature listed by the average spot intensity at the second temperature. For each gene the fold difference is shown for each of the two probes targeting the gene (probe 1 and probe 2); for each probe the value is the average of the fold differences for the probe on the upper and lower arrays. The microarray data represent the data for three separate slides, each hybridized with cDNA from an independent replicate RNA isolation. A negative value indicates that the level of expression at the first temperature listed was lower than the level of expression at the second temperature. Relative differences in transcript levels are shown only if the difference was significant (P < 0.05).