Table 1 Predicted regulatory interactions. For genome abbreviations see "Methods".
Operon | Genome | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Â | YP | YE | PM | AA | HI | HD | VV | VP | VC | VF |
Respiratory enzymes | ||||||||||
atpIBEFHAGDC* | -A- | fAn | fan | -an | --- | f-- | F-- | Fa- | F-n | F-- |
cydAB | Fan | Fa- | FA- | F-N | FAN | FAN | FAN | FAN | FAN | FAN |
napFDAGHBC* | FAN | FAN | F-N | F-N | FaN | FaN | FAN | FAN | FAN | FAN |
ccmABCDEFGH | f-N | --N | F-N | FaN | F-N | FaN | FaN | FaN | --N | F-N |
nrfABCDEXFG* | 0 | 0 | F-N | F-N | FaN | FaN | FaN | F-N | 0 | FaN |
nirBDC-cysG | F-N | F-N | 0 | 0 | 0 | 0 | F-N | F-N | 0 | F-N |
dmsABC | f-n | 0 | F-N | F-N | F-N | 0 | 0 | fa- | 0 | fan |
torYZ | 0 | --n | 0 | FAN | FAN | FAN | 0 | --N | --N | --N |
torCAD* | 0 | 0 | fan | 0 | 0 | 0 | Fa- | F-n | Fa- | F-n |
frdABCD | -A- | fA- | FAN | FAN | FAN | FAN | faN | --N | --N | faN |
fdoGHI | FAN | FAN | FAn | FAn | -A- | 0 | 0 | 0 | 0 | 0 |
fdnGHI | 0 | 0 | Â | Â | Â | 0 | 0 | 0 | 0 | 0 |
fdhD | -AN | -AN | fAn | fAn | -A- | -A- | 0 | --- | 0 | 0 |
nqrABCDEF | Fa- | F-- | FAN | FAN | FA- | FAN | FA- | FA- | FA- | FAn |
ndh | FA- | FAn | 0 | fA- | -An | fAn | F-- | F-- | F-- | F-- |
glpABC | F-- | Fa- | F-- | --- | F-- | Fa- | Fa- | 0 | F-- | F-n |
glpD | F-- | F-- | 0 | f-- | 0 | 0 | --- | --- | f-- | fa- |
dadAX | -A- | -A- | 0 | 0 | 0 | 0 | fA- | -An | -An | 0 |
Molibdenum cofactor synthesis | ||||||||||
moaABCDE* | Fa- | F-- | F-- | F-N | F-N | FaN | --N | --N | --N | --- |
moeAB | --- | f-- | F-- | FA- | FA- | FA- | --- | --- | --- | -a- |
Central metabolism and fermentation | ||||||||||
pgk | --- | --- | --N | --- | faN | -aN | F-- | F-- | F-- | F-- |
eno | --- | -a- | F-N | FaN | F-N | F- | --- | --n | --- | --- |
aldB | 0 | 0 | 0 | 0 | 0 | 0 | FA- | FA- | FA- | FA- |
adhE | fa- | --- | f-n | f-n | 0 | --- | FAN | FAN | FAN | FAN |
pdhR-aceEF-lpdA* | FA- | FA- | -A- | -An | -A- | -An | FA- | F-N | FAN | FAN |
pflB | --N | --N | -AN | -AN | -A- | f-N | -AN | --N | fA- | -AN |
yfiD | Fa- | F-- | FA- | FA- | FA- | -An | F-N | FAN | FAN | FAN |
mdh | -A- | fA- | f-N | -aN | f-N | -aN | FA- | FA- | FA- | --- |
pckA | --- | --- | --n | -A- | fAn | fA- | -A- | -An | -A- | fAn |
ppsA | F-- | F-- | 0 | 0 | 0 | 0 | -A- | fA- | --- | -A- |
aspA | f-- | -a- | -A- | f-- | -A- | -An | --N | --N | 0 | faN |
sfcA | --N | faN | 0 | --- | 0 | 0 | F-- | F-- | F-- | F-n |
sdhCDAB | -A- | -A- | 0 | 0 | 0 | 0 | -A- | fA- | fA- | -A- |
gltA | -A- | -A- | -an | 0 | 0 | 0 | -A- | fA- | fA- | -A- |
fumC | f-- | --- | -aN | --N | --N | f-- | 0 | -a- | fa- | 0 |
SucABCD* | --- | --- | -AN | -A- | fAN | fAN | --- | --- | --- | -a- |
ldhA | --- | f-- | 0 | --- | -a- | 0 | -a- | --N | f-N | -aN |
talB | f-- | --- | -aN | 0 | f-N | f-N | -a- | f-- | --- | --- |
Metabolism of carbohydrates | ||||||||||
mtlADR | fA- | -A- | --- | 0 | 0 | 0 | F-- | Fa- | F-- | 0 |
nagBACD* | --- | --- | fa- | --- | --- | --n | F-- | F-- | F-- | F-n |
ptsHI-crr | --n | --- | -A- | -An | -A- | fA- | --- | --n | -a- | --n |
deoCABD* | f-- | -a- | --- | --- | f-- | f-- | --N | --N | --- | --N |
malQ-glgBXCAP* | Fa- | F-- | F-N | F-N | F-N | 0 | -an | f-- | fa- | fan |
Fatty acids metabolism | ||||||||||
fadIJ | -A- | -A- | 0 | 0 | 0 | 0 | FA- | FA- | F-- | FA- |
fadBA | FAn | FA- | 0 | 0 | 0 | 0 | -A- | fA- | -A- | fA- |
fadD | fA- | -An | --- | -a- | -an | f-- | -A- | -A- | -A- | -A- |
acpP-fabF* | -A- | -A- | fan | --- | --- | --- | F-- | F-- | F-- | --- |
Oxygen stress response | ||||||||||
sodA | -A- | -A- | FA- | FA- | FAn | FA- | 0 | 0 | 0 | 0 |
Nucleotide reductases | ||||||||||
nrdDG | F-- | F-- | f-- | -an | f-- | 0 | F-- | Fa- | F-- | F-- |
nrdAB | --n | --- | F-n | F-- | Fa- | --- | --- | --- | f-- | f-- |
Transport | ||||||||||
focA | FAN | FAN | FA- | FA- | FA- | FA- | --- | f-- | --- | fa- |
dcuB | -A- | fA- | F-N | F-N | 0 | F-N | -a- | --- | f-- | fan |
dcuA | -A- | fA- | --N | f-N | f-N | -a- | --- | --n | --- | --n |
dcuC | 0 | f-- | -a- | -a- | 0 | 0 | Fa- | F-- | F-- | Fa- |
gltP | -An | fA- | 0 | 0 | 0 | 0 | fAn | -A- | -A- | fAn |
glpFK | -An | -A- | f-- | 0 | -an | fa- | -A- | -An | --- | -An |
gntXY | --- | --- | FA- | F-- | FA- | FA- | --- | --- | --- | --n |
fadL | FA- | FA- | --- | -a- | f-- | -a- | FA- | -A- | FA- | FA- |
feoAB | --- | f-- | 0 | 0 | 0 | 0 | FAN | FAN | -AN | FA- |
Peptidase T | ||||||||||
pepT | F-- | F-- | F-- | F-- | F-- | 0 | F-- | Fa- | F-- | Fan |
Transcription regulators | ||||||||||
fnr | F-- | F-- | FAN | FAN | FAN | FA- | Fa- | Fa- | F-- | F-- |
arcA | FA- | FA- | f-- | --- | f-n | -a- | FA- | FA- | FA- | FA- |
narQP | -a- | --n | f-- | --n | fan | -a- | FAN | FAN | FAN | FAN |
dusB-fis | -a- | --- | FA- | -A- | F-- | FA- | --- | --- | --- | f-- |
cpxRA | --- | --- | FA- | FA- | FA- | FAn | --- | --- | --- | -a- |
oxyR | --- | --- | -A- | -A- | -A- | fA- | --- | f-- | --- | -a- |
fur | --- | --- | F-- | Fa- | F-- | F-- | -A- | -A- | -A- | -An |