TABLE 1.

Genes upregulated by acid or downregulated by base (pH 6.0/pH 9.0 ratio is fourfold or greater)

GeneCharacteristicsLog2 pH expression ratioa
6.0/9.06.0/7.07.0/9.0
lrgBAntiholin-like protein4.63.70.9
cadAHeavy metal cpx-type ATPase4.64.00.6
lrgAAntiholin-like protein4.53.4
yhbJUnknown4.41.53.0
hxlA3-Hexulose-6-phosphate synthase4.22.31.9
yhbIMarR transcriptional regulator homolog4.21.52.7
yhcAMultidrug resistance protein homolog4.11.52.6
ydeQNAD(P)H oxidoreductase homolog4.01.62.4
hxlB6-Phospho-3-hexuloisomerase3.92.31.6
yhcBtrp repressor binding protein homolog3.41.32.2
alsSAlpha-acetolactate synthase3.33.0
katAVegetative catalase 13.21.22.1
ynfCUnknown3.11.91.2
alsDAlpha-acetolactate decarboxylase3.12.50.6
czcOPotassium and divalent cation transport3.03.1
yhcCUnknown2.81.21.6
namAPossible NADPH dehydrogenase of phenolics2.71.51.2
czcDCadmium, cobalt, and zinc/H+/K+ antiporter2.62.5
yorEUnknown2.62.4
yorFUnknown2.52.2
hup2SPBc2 prophage-derived DNA-binding protein HU 22.31.70.6
maeNNa+/malate symporter2.3-2.64.9
yrpCGlutamate racemase homolog2.32.0
yorBUnknown2.21.60.6
maeAMalate dehydrogenase homolog2.22.7
gspAGeneral stress protein2.22.6
ywjCUnknown2.12.4
yrhEFormate dehydrogenase homolog2.1−1.13.3
yflTGeneral stress protein, 17 M2.12.5
yotJUnknown2.12.3
ydgAUnknown2.01.01.0
ybyBUnknown2.02.5
ydfEUnknown2.01.7
  • a Significant values are shown (P ≤ 0.001).