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. 2010 Jan 22;192(7):1774–1784. doi: 10.1128/JB.01132-09

TABLE 1.

Transcriptome analysis of EGD-e/pycA::pLSV101

Genea Encoded protein Relative transcript level
Downregulated
    lmo0048 Similar to Staphylococcus two-component sensor histidine kinase AgrB 0.02
    lmo0049 Unknown 0.02
    lmo0050 Similar to sensor histidine kinase (AgrC from Staphylococcus) 0.02
    lmo0051 Similar to 2-component response regulator protein (AgrA from Staphylococcus) 0.02
    lmo0208 Conserved hypothetical protein 0.47
    lmo0210 (ldh) Similar to l-lactate dehydrogenase 0.19
    lmo0238 (cysE) Similar to serine O-acetyltransferase 0.31
    lmo0239 (cysS) Cysteinyl-tRNA synthetase 0.33
    lmo0240 Highly similar to B. subtilis YazC protein 0.35
    lmo0241 Similar to conserved hypothetical proteins like B. subtilis YacO protein 0.34
    lmo0242 Similar to B. subtilis YacP protein 0.40
    lmo0243 (sigH) RNA polymerase σ30 factor 0.44
    lmo0283 Similar to ABC transporter permease protein 0.34
    lmo0284 Similar to ABC transporter (ATP-binding protein) 0.38
    lmo0285 Putative lipoprotein 0.41
    lmo0286 Similar to aminotransferase 0.34
    lmo0302 Unknown 0.35
    lmo0352 Highly similar to regulatory proteins (DeoR family) 0.44
    lmo0477 Putative secreted protein 0.02
    lmo0478 Putative secreted protein 0.02
    lmo0479 Putative secreted protein 0.03
    lmo0560d Similar to NADP-specific glutamate dehydrogenase 0.30
    lmo0641 Similar to heavy metal-transporting ATPase 0.25
    lmo0642 Unknown 0.25
    lmo0778 Unknown 0.13
    lmo0780 Unknown 0.44
    lmo0788 Unknown 0.31
    lmo0795 Conserved hypothetical protein 0.45
    lmo1014 (gbuA)b Highly similar to glycine betaine ABC transporter (ATP-binding protein) 0.44
    lmo1015 (gbuB)b Highly similar to glycine betaine ABC transporters (permease) 0.43
    lmo1056 Unknown 0.52
    lmo1073b Similar to metal binding protein (ABC transporter) 0.14
    lmo1120 Unknown 0.53
    lmo1121 Unknown 0.55
    lmo1227 Similar to uracil-DNA glycosylase 0.42
    lmo1298 (glnR)e Similar to glutamine synthetase repressor 0.15
    lmo1299 (glnAe Highly similar to glutamine synthetases 0.21
    lmo1516d Similar to ammonium transporter NrgA 0.10
    lmo1517d Similar to nitrogen regulatory PII protein 0.16
    lmo1634 Similar to alcohol-acetaldehyde dehydrogenase 0.11
    lmo1983 (ilvD) Similar to dihydroxy-acid dehydratase 0.39
    lmo1984 (ilvB)b Similar to acetolactate synthase (acetohydroxy-acid synthase) (large subunit) 0.49
    lmo1985 (ilvN)b Similar to acetolactate synthase (acetohydroxy-acid synthase) (small subunit) 0.41
    lmo2064 Similar to large conductance mechanosensitive channel protein 0.34
    lmo2192d Similar to oligopeptide ABC transporter (ATP-binding protein) 0.40
    lmo2193d Similar to oligopeptide ABC transporter (ATP-binding protein) 0.48
    lmo2195d Similar to oligopeptide ABC transporter (permease) 0.45
    lmo2360 Transmembrane protein 0.49
    lmo2374 Similar to aspartate kinase 0.49
    lmo2407 Unknown 0.53
    lmo2410e Unknown 0.26
    lmo2457 (tpi)d Highly similar to triose phosphate isomerase 0.42
    lmo2458 (pgk)d Highly similar to phosphoglycerate kinase 0.38
    lmo2459 (gap)d Highly similar to glyceraldehyde 3-phosphate dehydrogenase 0.34
    lmo2460d Similar to B. subtilis CggR hypothetical transcriptional regulator 0.18
    lmo2587 Conserved hypothetical protein 0.41
    lmo2646 Unknown 0.02
    lmo2648 sImilar to phosphotriesterase 0.02
    lmo2753e Unknown 0.43
    lmo2761 Similar to β-glucosidase 0.03
    lmo2762 Similar to PTS cellobiose-specific enzyme IIB 0.10
    lmo2763 Similar to PTS cellobiose-specific enzyme IIC 0.12
    lmo2764 Similar to xylose operon regulatory protein and to glucose kinase 0.12
    lmo2768 Hypothetical membrane protein 0.45
    lmo2785 (kat)e Catalase 0.46
    lmo2857 Hypothetical protein 0.32
Upregulated
    lmo0109b Similar to transcriptional regulatory proteins, AraC family 5.14
    lmo0110c Similar to lipase 3.83
    lmo0130d Similar to 5-nucleotidase, putative peptidoglycan bound protein (LPXTG motif) 14.16
    lmo0135d Similar to oligopeptide ABC transport system substrate-binding proteins 3.40
    lmo0211 (ctc) Similar to B. subtilis general stress protein 2.32
    lmo0267 Similar to other proteins 1.85
    lmo0391b Unknown 2.25
    lmo0392b Highly similar to B. subtilis YqfA protein 2.09
    lmo0422b Similar to unknown protein 1.95
    lmo0514 Similar to internalin protein, putative peptidoglycan bound protein (LPXTG motif) 2.26
    lmo0530 Unknown 2.30
    lmo0556b Similar to phosphoglycerate mutase 2.31
    lmo0715 Unknown 2.09
    lmo0769 Similar to α-1,6-mannanase 3.81
    lmo0863 Unknown 2.57
    lmo0864 Unknown 3.56
    lmo0865 Similar to phosphomannomutase 2.52
    lmo0971 (dltD) DltD protein for d-alanine esterification of lipoteichoic acid and wall teichoic acid 2.22
    lmo0972 (dltC) d-Alanyl carrier protein 1.94
    lmo0973 (dltB) DltB protein for d-alanine esterification of lipoteichoic acid and wall teichoic acid 2.08
    lmo0974 (dltA)c d-Alanine-activating enzyme (Dae), d-alanine-d-alanyl carrier protein ligase (Dcl) 2.11
    lmo1042b Similar to molybdopterin biosynthesis protein MoeA 2.60
    lmo1043 Similar to molybdopterin-guanine dinucleotide biosynthesis MobB 2.56
    lmo1044b Similar to molybdopterin converting factor, subunit 2 2.89
    lmo1045b Similar to molybdopterin converting factor, subunit 1 2.77
    lmo1046b Similar to molybdenum cofactor biosynthesis protein C 3.07
    lmo1047 Similar to molybdenum cofactor biosynthesis protein A 2.37
    lmo1048b Similar to molybdenum cofactor biosynthesis protein B 1.95
    lmo1049 Similar to molybdopterin biosynthesis protein MoeB 2.92
    lmo1097 Similar to integrases 2.81
    lmo1142 Similar to Salmonella enterica PduS protein 3.73
    lmo1143 Similar to S. enterica PduT protein 3.56
    lmo1144 Similar to S. enterica PduU protein 2.29
    lmo1145 Similar to S. enterica PduV protein 2.37
    lmo1146 Unknown 2.44
    lmo1150 Regulatory protein similar to S. enterica serovar Typhimurium PocR protein 7.31
    lmo1172b Similar to two-component response regulator 10.10
    lmo1254d Similar to α,α-phosphotrehalase 7.38
    lmo1255d Similar to PTS system trehalose-specific enzyme IIBC 9.42
    lmo1306 Highly similar to B. subtilis YneF protein 2.52
    lmo1339 Similar to glucose kinase 1.99
    lmo1349b Similar to glycine dehydrogenase (decarboxylating) subunit 1 4.21
    lmo1388 (tcsA)d CD4+ T-cell-stimulating antigen, lipoprotein 2.41
    lmo1396 Similar to phosphatidylglycerophosphate synthase 1.94
    lmo1416 Unknown 2.83
    lmo1425 (opuCD) Similar to betaine/carnitine/choline ABC transporter 1.90
    lmo1521 Similar to N-acetylmuramoyl-l-alanine amidase 2.45
    lmo1538b Similar to glycerol kinase 4.35
    lmo1539b Similar to glycerol uptake facilitator 5.31
    lmo1648 Unknown 2.65
    lmo1690 Similar to hypothetical proteins 4.01
    lmo1879 (cspD)b Similar to cold shock protein 11.39
    lmo1883b Similar to chitinases 8.00
    lmo1900 (panD) Similar to aspartate 1-decarboxylases 3.86
    lmo1901 (panC) Similar to panthotenate synthetases 3.68
    lmo1902 (panB) Similar to ketopantoate hydroxymethyltransferases 5.94
    lmo1903 Similar to thioredoxin 2.47
    lmo1954 (drm) Similar to phosphopentomutase 3.92
    lmo1955b Similar to integrase/recombinase 3.04
    lmo1970 Similar to putative phosphotriesterase-related proteins 2.78
    lmo1972 Similar to pentitol PTS system enzyme IIB component 4.53
    lmo1974 Similar to transcription regulators (GntR family) 2.87
    lmo1999b Weakly similar to glucosamine-fructose-6-phosphate aminotransferase 2.14
    lmo2007 Weakly similar to putative sugar-binding lipoproteins 2.10
    lmo2084d Unknown 2.66
    lmo2104 Unknown 2.42
    lmo2257 Hypothetical CDS 16.96
    lmo2293d Protein gp10 (bacteriophage A118) 6.05
    lmo2295d Protein gp8 (bacteriophage A118) 7.76
    lmo2296d Similar to coat protein (bacteriophage SPP1) 13.00
    lmo2298d Protein gp4 (bacteriophage A118) 12.60
    lmo2300 Putative terminase large subunit (bacteriophage A118) 6.06
    lmo2304 Protein gp65 (bacteriophage A118) 3.61
    lmo2305 Unknown 2.63
    lmo2306 Similar to phage protein 3.61
    lmo2307 Hypothetical protein 4.35
    lmo2308 Similar to single-stranded DNA-binding protein 3.72
    lmo2309 Unknown 2.58
    lmo2310 Unknown 3.71
    lmo2311 Unknown 3.97
    lmo2312 Unknown 4.29
    lmo2315 Similar to protein gp51 (bacteriophage A118) 2.92
    lmo2322 Protein gp44 (bacteriophage A118) 3.20
    lmo2335 (fruA) Highly similar to PTS fructose-specific enzyme IIABC component 54.79
    lmo2336 (fruB) Fructose-1-phosphate kinase 98.99
    lmo2337 Similar to regulatory protein DeoR family 112.00
    lmo2343 Similar to nitrilotriacetate monooxygenase 2.74
    lmo2344 Similar to B. subtilis YtnI protein 2.97
    lmo2345 Conserved hypothetical protein 2.56
    lmo2437d Unknown 10.25
    lmo2522 Similar to hypothetical cell wall binding protein from B. subtilis 3.30
    lmo2539 (glyA) Highly similar to glycine hydroxymethyltransferase 2.20
    lmo2590b Similar to ATP binding proteins 4.55
    lmo2684c Similar to cellobiose phosphotransferase enzyme IIC component 18.73
    lmo2685c Similar to cellobiose phosphotransferase enzyme IIA component 17.18
    lmo2708 Similar to PTS system, cellobiose-specific enzyme IIC 17.05
    lmo2714 Peptidoglycan-anchored protein (LPXTG motif) 2.10
    lmo2742d Unknown 6.51
    lmo2743 Similar to transaldolase 6.06
    lmo2771b Similar to β-glucosidase 135.36
    lmo2772b Similar to β-glucoside-specific enzyme IIABC 207.92
    lmo2773b Similar to transcription antiterminator 178.03
    lmo2786 (bvrC) Unknown 2.93
    lmo2787 (bvrB)b β-Glucoside-specific phosphotransferase enzyme IIABC component 10.06
    lmo2788 (bvrA)b Transcription antiterminator 4.51
    lmo2797b Similar to phosphotransferase system mannitol-specific enzyme IIA 5.61
    lmo2798b Similar to phosphatase 6.56
    lmo2851 Similar to AraC-type regulatory protein 4.98
a

Genes were identified by microarray analyses as down- or upregulated in EGD-e/pycA::pLSV101 relative to L. monocytogenes EGD-e grown in BHI medium.

b

Gene or operon whose transcription was shown previously to be controlled by CcpA and Hpr-SerP (16).

c

Gene or operon whose transcription was shown previously to be controlled by CcpA only (16).

d

Gene or operon whose transcription was shown previously to be controlled by Hpr-SerP only (16).

e

Gene or operon whose transcription was shown previously to be controlled by reduced glucose uptake (14, 16).