Category/Gene Functionb Fold changec Microarrayd RT-PCRe Amino acid biosynthesis       LMOf2365_0624 O-acetylhomoserine (thiol)-lyase -2.3 -2.0 LMOf2365_1705 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase -4.3 -3.3 LMOf2365_2285 aspartate aminotransferase -3.6 -2.5 Cell envelope LMOf2365_0342              putative lipoprotein -4.0 -1.4   LMOf2365_0345                 LMOf2365_0694 LMOf2365_1102 LMOf2365_2550                LMOf2365_2610 LMOf2365_2742                                leucine rich repeat domain/ LPXTG-motif cell wall anchor domain protein   -6.3 -10 cell wall surface anchor family protein   -2.3 -10 glycosyl transferase, group 2 family protein -3.6 -1.4 putative lipoprotein -2.9 -28.6 putative lipoprotein -3.0 -5.0 D-alanyl-D-alanine carboxypeptidase                                  -2.9 -87.8 Transport and binding proteins sugar ABC transporter, sugar-binding protein                              -5.6 -2.0 LMOf2365_0267 LMOf2365_0305                D-methionine ABC transporter, D-methionine-binding protein -3.6 -2.0 LMOf2365_0390                 PTS system, beta-glucoside-specific, IIB component  -2.8 -1.4   LMOf2365_1001 ABC transporter, permease protein                 -5.0 -3.3 LMOf2365_1056 PTS system; beta-glucoside-specific; IIABC component                -7.7 -2.5 LMOf2365_1445                 glycine betaine/L-proline ABC transporter, glycine betaine/L-proline-binding protein -5.6 -10 LMOf2365_1744                PTS system, beta-glucoside-specific, IIB component -6.3 -2.5 LMOf2365_2247 ABC transporter, permease protein -2.0 -1.7 LMOf2365_2260                ABC transporter, ATP-binding protein -5.0 -2.5 LMOf2365_2333 amino acid antiporter                         -3.6 -2.0 LMOf2365_2646 putative PTS system, galactitol-specific, IIB component                                                                            -3.4 -2.0 LMOf2365_2647 PTS system, IIA component            -4.0 -5.0 LMOf2365_2749   ABC transporter, ATP-binding protein                       -2.3 -1.4 Transcription   -7.1 -5.0 LMOf2365_0255 RNA polymerase sigma-70 factor Regulatory functions       LMOf2365_0040 transcriptional regulator; LacI family -3.3 -1.3 LMOf2365_0344 putative transcriptional activator -2.3 -1.7 LMOf2365_1051                transcriptional regulator, LacI family -2.3 -1.4 LMOf2365_2407 transcription antiterminator LicT     -2.1 -5.0 LMOf2365_2763 transcription antiterminator, BglG family -3.4 -2.5 LMOf2365_2805 transcriptional regulator, TetR family -2.9 -1.4 Central intermediary metabolism       LMOf2365_2328                putative glucosamine-6-phosphate isomerase -2.3 -2.0 Cellular processes       LMOf2365_0742 putative flagellar hook-associated protein FlgL -2.1         -2.5 aOnly the genes that met the stringent criteria for being up-regulated in the ctsR mutant 2-1 of L. monocytogenes Scott A (i.e., fold change >2 fold; p<0.01) are listed here. bGene functions are based on annotations provided by TIGR (http://cmr.jcvi.org/tigr-scripts/CMR/CmrHomePage.cgi). cFold change indicates the transcript ratios of the ctsR mutant 2-1 between pressure treatment (450 Mpa, 3 minutes) and normal conditions as determined by microarray and real-time PCR. dNumbers are average values from two independent experiments. eNumbers are average values from two independent experiments.

Table 4: Genes induced in L. monocytogenes strain ScottA ctsR mutant 2-1 under pressure treatment as identified by microarraya and real-time PCR analysis. Gene repressed only in the ctsR mutant 2-1 (not in the wildtype) are in boldface.