Supplementary Table I: Co-regulated adjacent TU pairs in E. coli
Regulating
TU1
TU2
Orientationb
a
TFs
rs d
Div
Div
Div
Div
Div
Div
Div
bioA
csgDEFG
fixABCX
araC
betT
cynTSX
entCEBA-cstA
nagE
sdhCDAB-b0725sucABCD
bioBFCD
csgBA
Mode of
control
on TU1c
P/P
P/D
N/N
N
N
P/N
P/N
Div
Div
N
P/P
N
P/P
0.76
0.84
flgAMN
malI
fliC
fliE
glpTQ
dsdC
hycABCDEFGH
fucAO
lysA
uxaC
yhfA
asnC
illvY
argE
malEFG
uvrA
soxS
melR
cpxR
pspF
rhaBAD
torR
xylAB
ybaO
glnHPQ-ybiO
hyaABCDEF
narK
flgBCDEFGHIJK
malXY
fliDST
fliFGHIJK
glpACB
dsdXA
hypABCDE
fucPIKUR
lysR
exuT
CRP
asnA
ilvC
argCBH
malK-lamB-malM
Ssb
soxR
melAB
cpxP
pspABCDE
rhaSR
torCAD
xylFGHR
mdlA
dps
appCBA
narGHJI
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Div
Uni
Uni
Uni
Uni
P/P
N/N
P
P/P
P/N
N
P/P
P/P
P
N
D
N
N
N
P/P
N
P
P/N
P
N
P
N
P
P
P
P/P
P/P/P
P/P
D/N
P
P/P
P/N
P
P/P
P/P
N
N
D
P
P
N
P/P
N
N
P/P
P
P
N
P
P
P
P
P/P
P/P/P
0.85
NDf
0.69
0.89
0.8
0.51
0.77
0.67
0.46
0.48
NDf
0.38
-0.08
0.83
0.64
0.38
0.57
0.91
0.04
0.38
0.77
NDf
0.29
0.43
0.04
NDf
0.89
fumC
tar
fliFGHIJK
fumA
motAB-cheAW
fliLMNOPQR
Uni
Uni
Uni
N
P
P/P
N
P
P/P
NDf
0.75
0.92
CRP / caiF
CRP / araCe
arcA / betIe
cynRe
Fur
CRP /nagCe
CRP / arcA
caiTABCDE
araBAD
betIBA
cynR
fepB
nagBACD
gltA
birA
csgDe /
ompR
FlhDC / fliA
CRP /malIe
FliA
FlhDC / fliA
CRP / glpR
dsdCe
fhlA / ihfAB
CRP / fucRe
lysRe
exuR
CRPe
asnCe
ilvYe
argR
CRP / malT
lexA
soxRe
CRP/melRe
cpxRe
pspFe
rhaSe
torRe
xylRe
Rob
ihfAB
appY / arcA
Fnr/ ihfAB /
narL
arcA
fliA
FlhDC / fliA
Mode of
control
on TU2c
P/P
P/N
N/N
P
N
P/N
P/N
0.88
0.88
NDf
0.67
0.75
0.8
0.86
CRP / galSe
CRP
CRP
CRP
rhaSe
a
mglBAC
caiF
nupG
glpD
rhaSR
galS
caiTABCDE
speC
glgCAP
rhaT
Uni
Con
Con
Con
Con
P/N
P
P
P
N
P/N
P
N
P
P
If more than one TF regulates the same adjacent TU pair, all common TFs are indicated, separated by ‘/’
Orientation of TU1 and TU2 relative to each other. Div=divergent, Con=convergent and
Uni=unidirectional
c
P=positive regulation, N=negative regulation, D=dual regulation. If more than one TF regulates the same
TU pair the type of regulation is indicated for each of the TFs separated by ‘/’
d
Spearman correlation between the expression profiles of TU1 and TU2
e
Co-regulation in cis
f
Expression data missing
b
0.53
0.25
0.57
0.77
0.63