Table 5 Relative gene expression in E. coli BW25113 Δpta strain.

rpoD

RNA polymerase sigma 70 subunit

Transcriptional regulators

0.05 ± 0.02

-0.15 ± 0.04

-0.46 ± 0.23

-0.36 ± 0.10

rpoS

RNA polymerase sigma 38 subunit

-0.18 ± 0.22

-0.48 ± 0.05

0.36 ± 0.17

-0.18 ± 0.32

ihfA

Integration host factor, α subunit

0.31 ± 0.19

-0.46 ± 0.3

-0.15 ± 0.06

-0.59 ± 0.08

crp

cAMP repression protein

0.04 ± 0.15

0.31 ± 0.11

-0.22 ± 0.25

-0.05 ± 0.04

pdhR

Pyruvate dehydrogenase complex regulator

-0.70 ± 0.15

-1.11 ± 0.15

n.d.

n.d.

fruR

cAMP independent protein

-0.19 ± 0.01

-0.20 ± 0.16

-0.59 ± 0.06

-0.05 ± 0.04

zwf

Glucose 6-phosphate dehydrogenase

Pentose phosphate pathway

-0.04 ± 0.02

-0.05 ± 0.03

-0.39 ± 0.06

-0.24 ± 0.04

ptsG

Enzyme II^glc, PTS subunit

Glucose transport

0.21 ± 0.15

-0.20 ± 0.16

n.d.

n.d.

pykF

Pyruvate kinase F

Glycolysis

-0.12 ± 0.08

0.26 ± 0.11

-0.85 ± 0.22

-0.88 ± 0.24

pykA

Pyruvate kinase A

-0.25 ± 0.16

0.67 ± 0.11

-0.83 ± 0.10

-0.13 ± 0.06

aceE

Pyruvate dehydrogenase

-0.07 ± 0.12

0.00 ± 0.05

-1.04 ± 0.18

-0.16 ± 0.07

ldhA

NAD dependent

D-Lactate dehydrogenase

Fermentation pathways

-0.02 ± 0.11

0.73 ± 0.18

n.d.

n.d.

dld

NAD independent

Lactate dehydrogenase

0.31 ± 0.26

-0.66 ± 0.05

n.d.

n.d.

lldD

NAD independent

L-lactate dehydrogenase

-0.09 ± 0.12

-0.41 ± 0.03

n.d.

n.d.

adhE

Alcohol dehydrogenase

-0.76 ± 0.04

0.21 ± 0.04

n.d.

n.d.

pflA

Pyruvate formate-lyase

activating enzyme

-0.09 ± 0.19

1.10 ± 0.10

n.d.

n.d.

acs

Acetyl-CoA synthethase

Acetate metabolism

0.37 ± 0.10

-0.71 ± 0.01

-1.28 ± 0.39

-1.36 ± 0.77

poxB

Pyruvate oxidase

-0.94 ± 0.30

-0.40 ± 0.05

-0.82 ± 0.10

-1.00 ± 0.11

actP

Acetate Permease

n.d.

n.d.

-0.28 ± 0.10

-1.13 ± 0.03

ackA

Acetate Kinase

n.d.

n.d.

-0.10 ± 0.01

-0.44 ± 0.00

icdA

Isocitrate dehydrogenase

TCA cycle

0.27 ± 0.04

-0.30 ± 0.16

-0.82 ± 0.17

0.31 ± 0.47

sucA

2-ketoglutarate dehydrogenase subunit

-0.12 ± 0.19

0.05 ± 0.03

-0.79 ± 0.17

-0.57 ± 0.36

sdhC

succinate dehydrogenase membrane protein

-0.14 ± 0.11

-0.77 ± 0.18

0.43 ± 0.58

-0.13 ± 0.47

mdh

Malate dehydrogenase

0.15 ± 0.03

-0.28 ± 0.08

-0.87 ± 0.08

-0.52 ± 0.17

aceA

Isocitrate lyase

Glyoxylate shunt

0.27 ± 0.06

-1.18 ± 0.09

-0.35 ± 0.25

-0.54 ± 0.23

aceB

Malate synthase

0.01 ± 0.11

-0.85 ± 0.04

-0.83 ± 0.15

-0.31 ± 0.31

maeB

Malate dehydrogenase

(NADP⁺-requiring)

Glucogenogenesis/anaplerosis

0.25 ± 0.09

-0.26 ± 0.01

-0.39 ± 0.27

0.27 ± 0.34

sfcA/maeA

Malate dehydrogenase

(NAD⁺-requiring)

0.26 ± 0.04

-0.18 ± 0.03

-0.05 ± 0.23

-0.45 ± 0.28

pck

Phosphoenolpyruvate carboxykinase

0.32 ± 0.07

1.04 ± 0.03

-0.57 ± 0.19

0.36 ± 0.13

ppc

Phosphoenolpyruvate carboxylase

-0.07 ± 0.08

0.68 ± 0.01

0.21 ± 0.25

0.29 ± 0.03

pps

Phosphoenolpyruvate synthase

1.27 ± 0.07

0.64 ± 0.00

-0.39 ± 0.05

-0.07 ± 0.37