Table 3. Microarray analysis of the DegU regulona.
| Gene |
Ratiob |
Description |
|
yybF |
5.7 |
unknown; similar to antibiotic resistance protein |
|
yxiD |
9.3 |
unknown |
|
ywfB |
5.4 |
unknown |
|
ywfC |
10.2 |
unknown |
|
ywfD |
11.1 |
unknown; similar to glucose 1-dehydrogenase |
|
ywfE |
7.9 |
unknown |
|
ywfF |
10.8 |
unknown; similar to efflux protein |
|
ywlA |
8.4 |
unknown; similar to unknown proteins from B.subtilis |
|
ywlB |
6.2 |
unknown |
|
atpB |
5.8 |
ATP synthase (subunit a) |
|
atpE |
6.3 |
ATP synthase (subunit c) |
|
atpF |
6.8 |
ATP synthase (subunit b) |
|
atpH |
6.7 |
ATP synthase (subunit delta) |
|
atpA |
7.5 |
ATP synthase (subunit alpha) |
|
atpG |
7.6 |
ATP synthase (subunit gamma) |
|
atpD |
8.1 |
ATP synthase (subunit beta) |
|
atpC |
7.0 |
ATP synthase (subunit epsilon) |
|
ywqH |
8.6 |
unknown |
|
ywqI |
7.1 |
unknown; similar to unknown proteins from B.subtilis |
|
ywqJ |
10.7 |
unknown; similar to unknown proteins from B.subtilis |
|
ywqK |
10.0 |
unknown |
|
degU |
6.6 |
two-component response regulator |
|
yvpA |
15.7 |
unknown; similar to pectate lyase |
|
yvdA |
7.0 |
unknown; similar to carbonic anhydrase |
|
yuiI |
9.5 |
unknown |
|
dhbA |
8.2 |
2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase |
|
dhbC |
6.5 |
isochorismate synthase |
|
dhbE |
6.8 |
2,3-dihydroxybenzoate-AMP ligase |
|
dhbB |
6.6 |
isochorismatase |
|
yukM |
5.7 |
unknown; similar to antibiotic synthetase |
|
yukL |
4.8 |
unknown |
|
yukE |
6.2 |
unknown |
|
yukD |
7.1 |
unknown |
|
yukC |
14.0 |
unknown |
|
yueB |
4.9 |
unknown |
|
yueC |
4.8 |
unknown |
|
ytvB |
11.6 |
unknown |
|
yraI |
16.0 |
unknown; similar to unknown proteins from B.subtilis |
|
yraJ |
21.2 |
unknown; similar to unknown proteins from B.subtilis |
|
ypjH |
6.2 |
unknown; similar to lipopolysaccharide biosynthesis-related
protein |
|
pksP |
4.6 |
polyketide synthase |
|
ppsM |
5.7 |
polyketide synthase |
|
pksL |
5.2 |
polyketide synthase |
|
pksK |
10.2 |
polyketide synthase |
|
pksG |
10.7 |
involved in polyketide synthesis |
|
frr |
6.7 |
ribosome recycling factor |
|
smbA |
7.1 |
uridylate kinase |
|
tsf |
7.6 |
elongation factor Ts |
|
bpr |
7.9 |
bacillopeptidase F |
|
murD |
5.0 |
UDP-N-acetylmuramoylalanine-d-glutamate ligase |
|
mraY |
5.5 |
phospho-N-acetylmuramoyl-pentapeptide
transferase |
|
nprE |
9.5 |
extracellular neutral metalloprotease |
|
ispA |
8.3 |
major intracellular serine protease |
|
pdhA |
4.6 |
pyruvate dehydrogenase (E1alpha subunit) |
|
nprB |
5.2 |
extracellular neutral protease B |
|
yitP |
22.1 |
unknown; similar to unknown proteins |
|
yitO |
32.5 |
unknown; similar to unknown proteins from B.subtilis |
|
yitN |
52.3 |
unknown; similar to unknown proteins from B.subtilis |
|
yitM |
36.4 |
unknown; similar to unknown proteins from B.subtilis |
|
yhfS |
5.6 |
unknown; similar to acetyl-CoA C-acetyltransferase |
|
aprE |
12.7 |
extracellular alkaline serine protease (subtilisin
E) |
|
yfjA |
7.9 |
unknown |
|
yfjB |
4.8 |
unknown |
|
yfjC |
13.3 |
unknown |
|
yfjD |
7.9 |
unknown; similar to unknown proteins from B.subtilis |
|
yfkN |
8.3 |
unknown; similar to 2′,3′-cyclic-nucleotide 2′-phosphodiesterase |
|
yflE |
5.2 |
unknown; similar to anion-binding protein |
|
ycdC |
4.6 |
unknown |
|
ycdA |
26.9 |
unknown |
|
yxnB |
0.18 |
unknown |
|
yxbA |
0.19 |
unknown |
|
yxbB |
0.24 |
unknown; similar to unknown proteins |
|
yxbc |
0.19 |
unknown |
|
hutM |
0.19 |
histidine permease |
|
hutG |
0.20 |
formiminoglutamate hydrolase |
|
hutI |
0.17 |
imidazolone-5-propionate hydrolase |
|
hutU |
0.21 |
urocanase |
|
hutH |
0.18 |
histidase |
|
licB |
0.20 |
PTS lichenan-specific enzyme IIB component |
|
licC |
0.25 |
PTS lichenan-specific enzyme IIC component |
|
epr |
0.25 |
minor extracellular serine protease |
|
acdA |
0.21 |
acyl-CoA dehydrogenase |
|
ywtD |
0.23 |
unknown; similar to murein hydrolase |
|
yviF |
0.20 |
unknown; similar to unknown proteins from B.subtilis |
|
hag |
0.16 |
flagellin protein |
|
fliS |
0.23 |
flagellar protein |
|
yvzB |
0.21 |
unknown; similar to flagellin |
|
yusL |
0.22 |
unknown; similar to 3-hydroxyacyl-CoA dehydrogenase |
|
yusK |
0.24 |
unknown; similar to acetyl-CoA C-acyltransferase |
|
yusJ |
0.21 |
unknown; similar to butyryl-CoA dehydrogenase |
|
mcpA |
0.19 |
methyl-accepting chemotaxis protein |
|
ytzE |
0.25 |
unknown; similar to transcriptional regulator |
|
ysfD |
0.04 |
unknown; similar to glycolate oxidase subunit |
|
ysfC |
0.05 |
unknown; similar to glycolate oxidase subunit |
|
yomZ |
0.22 |
unknown |
|
yobO |
0.18 |
unknown; similar to phage-related pre-neck
appendage protein |
|
yoeB |
0.20 |
unknown |
|
flgE |
0.25 |
flagellar hook protein |
|
fliJ |
0.24 |
flagellar protein required for formation of
basal body |
|
fliI |
0.24 |
flagellar-specific ATP synthase |
|
fliH |
0.23 |
flagellar assembly protein |
|
fliG |
0.24 |
flagellar motor switch protein |
|
fliF |
0.18 |
flagellar basal-body M-ring protein |
|
fliE |
0.14 |
flagellar hook-basal body protein |
|
flgC |
0.15 |
flagellar basal-body rod protein |
|
flgB |
0.14 |
flagellar basal-body rod protein |
|
ylqB |
0.11 |
unknown |
|
mcpC |
0.18 |
methyl-accepting chemotaxis protein |
|
ykwB |
0.20 |
unknown; similar to unknown proteins from B.subtilis |
|
rapA |
0.16 |
response regulator aspartate phosphatase |
|
yhfV |
0.20 |
unknown; similar to methyl-accepting chemotaxis
protein |
|
acoC |
0.19 |
acetoin dehydrogenase E2 component |
|
acoB |
0.19 |
acetoin dehydrogenase E1 component |
|
acoA |
0.14 |
acetoin dehydrogenase E1 component |
|
yfmT |
0.18 |
unknown; similar to benzaldehyde dehydrogenase |
|
ybdO |
0.14 |
unknown |
| ybdN | 0.19 | unknown |
aRNA was isolated from B.subtilis TT7291 (pDG148-degU) grown with and without IPTG, and used for microarray analysis (see Materials and Methods).
bIndicates the ratios of the signal intensities observed for the samples from IPTG-induced cells to those from uninduced cells.