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Table 2 List of selected up- and down- regulated genes during alkali adaptation.

From: Genomic and proteomic analysis of the Alkali-Tolerance Response (AlTR) in Listeria monocytogenes 10403S

Locus ID Symbol Fold P value Sub-functional category Gene/protein name
lmo2673 NA 5.38 0.000 Adaptations to atypical conditions Conserved hypothetical protein
lmo1074 NA -3.92 0.007 Amino acids, peptides and amines Highly similar to teichoic acid translocation permease protein TagG
lmo2250 arpJ -3.65 0.007   Similar to amino acid ABC transporter, permease protein
lmo0847 NA -3.34 0.008   Similar to glutamine ABC transporter (binding and transport protein)
lmo0997 clpE 3.64 0.013   ATP-dependent protease
LMOf2365_2469 NA 3.44 0.025 Anions Phosphate ABC transporter, ATP-binding protein
LMOf2365_2470 NA 4.19 0.002   Phosphate ABC transporter, permease protein
lmo2495 NA 6.03 0.000   Similar to phosphate ABC transporter
LMOf6854_2559 NA 8.01 0.000   Phosphate ABC transporter, permease protein
lmo0097 NA -6.17 0.004 Aromatic amino acid family Similar to PTS system mannose-specific, factor IIC
lmo2202 NA -3.61 0.001 Biosynthesis Similar to 3-oxoacyl- acyl-carrier protein synthase
LMOf2365_2674 NA 3.18 0.055   Putative Dihydroxyacetone kinase, Dak1 subunit
LMOf6854_2815 NA 5.21 0.000   Dihydroxyacetone kinase, Dak2 subunit, putative
LMOf6854_2814 NA 5.79 0.000   Dihydroxyacetone kinase, Dak1 subunit, putative
lmo1389 NA -4.31 0.006 Carbohydrates, organic alcohols & acids Similar to sugar ABC transporter, ATP-binding protein
LMOf2365_1877 NA -7.45 0.003 Cations and iron carrying compounds Manganese ABC transporter, ATP-binding protein
lmo1848 NA -6.13 0.003   Similar metal cations ABC transporter
lmo2087 NA 4.03 0.004   Similar to unknown proteins
lmo2507 ftsE -4.06 0.002 Cell division Highly similar to cell-division ATP-binding protein FtsE
lmo0582 iap -3.9 0.004   P60 extra cellular protein, invasion associated protein iap
lmo1603 NA -5.43 0.006 Degradation of proteins, peptides, and glycopeptides Similar to aminopeptidase
lmo2230 NA 5.04 0.000 Detoxification Similar to arsenate reductase
LMOf2365_2669 NA 3.22 0.048 DNA interactions Transcriptional regulator, TetR family
lmo1398 recA 3.12 0.001 DNA replication, recombination, and repair Recombination protein recA
lmo2489 uvrB 3.42 0.026   Excinuclease ABC (subunit B)
lmo2676 NA 3.48 0.022   Similar to UV-damage repair protein
lmo2717 cydB -3.3 0.004 Electron transport Highly similar to cytochrome D ubiquinol oxidase subunit II
lmo1067 NA -4.37 0.005 General Similar to GTP-binding elongation factor
lmo2494 NA 5.35 0.001 Glycolysis/gluconeogenesis Similar to negative regulator of phosphate regulon
lmo0786 NA -4.02 0.001 Other Similar to acyl-carrier phosphodiesterase and to NAD(P)H dehydrogenase
lmo1870 NA 4.22 0.002   Similar to alkali phosphatase
lmo0820 NA 4.7 0.000   Some similarity to acatyltransferases
lmo1974 NA 5.12 0.001   Similar to transcription regulators, (GntR family)
LMOh7858_0838 NA 3.24 0.104 PTS PTS system, mannose/fructose/sorbose family, IIA component subfamily
lmo2632 rplC -3.44 0.003 Ribosomal proteins : synthesis and modification Ribosomal protein L3
lmo0250 rplJ -3.36 0.004   Ribosomal protein L10
lmo2631 rplD -3.26 0.004   Ribosomal protein L4
lmo1252 NA 5.69 0.001 Role category not yet assigned Similar to B. subtilis YxkD protein
lmo2695 NA 4.55 0.001 Sugars Similar to dihydroxyacetone kinase