TABLE 6.

Genes positively regulated by σB in lineage II but not in lineage I

GeneaProductbFold changecAdjusted P valued
Lineage ILineage IILineage ILineage II
lmo0019Conserved hypothetical protein1.42.90.16490.0000
lmo0043Similar to arginine deiminase1.93.70.35670.0000
lmo0135Oligopeptide ABC transporter, oligopeptide-binding protein0.82.00.29530.0000
lmo0136Oligopeptide ABC transporter, permease protein0.61.50.14250.0000
lmo0264Internalin C21.65.30.35670.0000
lmo0265Peptidase, M20/M25/M40 family1.58.20.77600.0000
lmo0292Similar to heat shock protein HtrA serine protease1.41.60.11170.0017
lmo0321Similar to unknown proteins3.55.30.10100.0000
lmo0342Similar to transketolase1.51.60.57120.0185
lmo0343Similar to transaldolase1.12.00.97820.0011
lmo0344Similar to dehydrogenase/reductase1.31.80.80130.0083
lmo0345Similar to sugar phosphate isomerase1.31.50.81590.0002
lmo0346Similar to triosephosphate isomerase1.31.90.85780.0062
lmo0348Dihydroxyacetone kinase1.21.80.92720.0098
lmo0398Similar to phosphotransferase system enzyme IIA0.713.50.16490.0000
lmo0399PTS IIABC component, degenerate0.910.50.80490.0000
lmo0400PTS IIABC component, degenerate1.020.50.99220.0000
lmo0401Glycosyl hydrolase, family 380.813.40.36010.0000
lmo0402Similar to transcriptional antiterminator (BglG family)1.515.70.14040.0000
lmo0439Conserved hypothetical protein3.85.60.12910.0000
lmo0449Unknown1.71.50.45640.0238
lmo0584Conserved hypothetical membrane protein1.21.70.37090.0001
lmo0589Unknown1.71.70.19770.0079
lmo0590Similar to a fusion of two types of conserved hypothetical proteins, conserved hypothetical1.11.70.92280.0003
lmo0591Membrane protein, putative1.21.50.44790.0166
lmo0626Similar to unknown protein1.42.00.87360.0005
lmo0628Unknown2.93.30.20910.0000
lmo0647Unknown1.42.00.12410.0003
lmo0648Magnesium transporter, CorA family1.71.70.20150.0014
lmo0649Transcriptional regulator, GntR family2.71.70.12980.0004
lmo0650Conserved membrane protein1.81.90.07630.0000
lmo0759Glyoxalase family protein0.81.60.57620.0049
lmo0760Unknown0.91.60.56810.0016
lmo0811Carbonic anhydrase1.71.70.11070.0002
lmo0818Cation transport ATPase, E1-E2 family0.71.70.45250.0023
lmo0819Unknown1.51.70.08330.0010
lmo0928Similar to 3-methyladenine DNA glycosylase2.01.50.14980.0150
lmo0929Sortase family protein1.81.60.06630.0032
lmo0995Membrane protein, putative1.13.40.97520.0001
lmo1037B. subtilis YoaT protein homolog lmo1037 (imported)1.01.60.98730.0064
lmo1064Hypothetical protein1.41.70.70660.0002
lmo1072Highly similar to pyruvate carboxylase1.21.50.52470.0062
lmo1121Unknown1.92.40.05390.0000
lmo1226Similar to transporter (to B. subtilis YdgH protein)1.21.50.53410.0023
lmo1242B. subtilis YdeI protein homolog lin12061.11.60.80380.0004
lmo1243Uncharacterized conserved protein, PhnB family CAC36890.91.50.89890.0117
lmo1360Highly similar to methylene tetrahydrofolate dehydrogenase and methenyl tetrahydrofolate cyclohydrolase1.61.60.14210.0017
lmo1388CD4 T-cell-stimulating antigen, lipoprotein1.61.70.11460.0066
lmo1421Similar to glycine betaine/carnitine/choline ABC transporter (ATP-binding protein)1.72.20.14770.0003
lmo1426Similar to glycine betaine/carnitine/choline ABC transporter (osmoprotectant-binding protein)1.83.10.05410.0000
lmo1427Glycine betaine/l-proline ABC transporter, permease protein1.33.00.43860.0000
lmo1527Similar to protein export membrane protein SecDF1.81.50.17500.0006
lmo1534l-Lactate dehydrogenase1.51.60.16490.0005
lmo15716-Phosphofructokinase1.41.50.35900.0001
lmo1580Universal stress protein family1.32.00.20220.0000
lmo1622Conserved hypothetical protein1.21.60.57140.0011
lmo1635Conserved hypothetical protein2.11.70.10560.0037
lmo1637Putative ABC transporter, permease protein1.41.60.27160.0002
lmo1666Conserved hypothetical protein1.41.60.74640.0002
lmo1681Similar to cobalamin-independent methionine synthase1.21.50.72740.0061
lmo1636Similar to ABC transporter (ATP-binding protein)2.01.90.09360.0001
lmo1696Putative membrane protein1.21.50.44020.0073
lmo1698Acetyltransferase, GNAT family1.13.50.81560.0001
lmo1702Glyoxalase family protein1.01.60.94020.0369
lmo1713Cell shape-determining protein1.51.50.44020.0244
lmo1749Similar to shikimate kinase1.51.90.51570.0003
lmo1790Metallo-beta-lactamase family protein1.51.70.23990.0001
lmo1806Highly similar to acyl carrier proteins1.21.90.76440.0000
lmo1883Chitinase2.63.20.34660.0000
lmo1929Similar to nucleoside diphosphate kinase1.11.80.98730.0001
lmo1930Heptaprenyl diphosphate synthase component II (imported)2.21.60.10560.0003
lmo19312-Heptaprenyl-1,4-naphthoquinone methyltransferase1.91.80.07630.0002
lmo1932Heptaprenyl diphosphate synthase component I, putative1.81.50.16160.0272
lmo1933Similar to GTP cyclohydrolase I2.21.90.57610.0002
lmo2031Conserved hypothetical protein TIGR000441.21.60.42040.0111
lmo2033Highly similar to cell division protein FtsA1.41.60.20910.0015
lmo2159Oxidoreductase, Gfo/Idh/MocA family1.33.40.32950.0000
lmo2160AP endonuclease family 2 C terminus family1.52.80.09880.0000
lmo2161ThuA protein1.72.20.16420.0000
lmo2162Conserved hypothetical protein1.62.10.15130.0001
lmo2169Unknown1.41.70.25120.0000
lmo2196Similar to pheromone ABC transporter (binding protein)0.91.60.94360.0006
lmo2230Similar to arsenate reductase10.518.70.09470.0000
lmo2231Similar to unknown proteins0.93.10.97200.0009
lmo2368MutT/nudix family protein1.61.50.05770.0054
lmo2386Similar to B. subtilis YuiD protein1.11.90.94360.0000
lmo2387Conserved hypothetical protein1.44.00.38570.0000
lmo2389Similar to NADH dehydrogenase1.91.80.10560.0000
lmo2399Similar to conserved hypothetical proteins1.51.80.25770.0004
lmo2437Conserved hypothetical protein1.02.00.98660.0000
lmo2465Conserved hypothetical protein1.51.80.38840.0000
lmo2511Similar to conserved hypothetical proteins like B. subtilis YvyD protein1.21.90.51230.0001
lmo2520N-Acylamino acid racemase0.81.80.60610.0000
lmo2522Similar to hypothetical cell wall-binding protein from B. subtilis1.01.60.98250.0028
lmo2534ATP synthase F0, C subunit1.41.50.14260.0006
lmo2536Highly similar to ATP synthase subunit i1.41.60.29000.0009
lmo2568Unknown1.41.60.61450.0236
lmo2611Adenylate kinase1.01.50.98660.0143
lmo2638Pyridine nucleotide-disulfide oxidoreductase family protein1.01.50.99140.0025
lmo2670Hypothetical protein.2.3NA0.0000
lmo2695Dihydroxyacetone kinase, Dak1 subunit, putative1.61.60.10420.0003
lmo2696Dihydroxyacetone kinase family protein1.51.80.11000.0001
lmo2720Acetyl-coenzyme A synthetase1.01.50.99510.0022
lmo2739Transcriptional regulator, Sir2 family1.71.50.05380.0038
lmo2741Major facilitator family transporter1.71.50.06980.0010
lmo2742SH3 domain protein0.71.50.14470.0015
lmo2832Glycerate kinase 21.21.50.84370.0083
lmof2365_1394Hypothetical protein1.91.50.14980.0068
  • a Gene names are based on the L. monocytogenes EGDe locus. Bold type indicates putative operons.

  • b Common names of the products are based on the EGDe annotation.

  • c Changes in the transcript level in the parent strain compared to the transcript level in the ΔsigB strain. A ≥1.5-fold change was considered significant.

  • d An adjusted P value of <0.05 was considered significant.