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Table 3 Top 50 RpoS-negatively regulated genes in stationary phase. MER: mean expression ratio (rpoS/WT).

From: Global effect of RpoS on gene expression in pathogenic Escherichia coli O157:H7 strain EDL933

Gene

MER

Function

Major regulator

ampG

-13

Muropeptide Major facilitator superfamily (MFS) transporter

 

ansP

-12

L-asparagine permease

 

ccmBC*

-8/-24

Protoheme IX ABC transporter

 

cmr

-9

MFS multidrug transporter

 

codBA

-26/-5

Cytosine transporter/deaminase

Nac PurR

dusC

-13

tRNA dihydrouridine synthase

 

emrAB

-4/-11

EmrAB-TolC multidrug efflux

MprA

endA

-9

DNA-specific endonuclease I

 

guaBA

-16/-6

Purine nucleotides de novo biosynthesis I

Fis CRP PurR DnaA

lpxT

-14

Und-PP pyrophosphatase

 

mscK

-9

Mechanosensitive (MS) channel

 

napFD

-13/-4

Ferredoxin-type protein/chaperone for NapA

NarL NarP FNR FlhDC ModE

ndh

-12

NADH dehydrogenase II

Fis FNR ArcA PdhR IHF

pdhR

-10

Pyruvate dehydrogenase regulator

CRP FNR PdhR

proVWX

-10/-6/-2

Proline ABC transporter

H-NS

purEK

-22/-18

Purine nucleotides de novo biosynthesis I

PurR

purT

-27

Purine nucleotides de novo biosynthesis I

 

pyrD

-21

Dihydroorotate oxidase

PurR Fis

pyrL

-39

Pyr operon leader peptide

 

rarD

-9

Putative permease

 

rhlE

-18

ATP-dependent RNA helicase

 

rsxABCDGE-nth

-10/-4/-7/-13/-26/-7/-16

SoxR reducing system/endonuclease III

 

speC

-10

Putrescine biosynthesis III

CRP

thiI

-12

Thiamine biosynthesis

 

tyrP

-15

Tyrosine transporter

TyrR

uhpABC

-5/-9/-18

Uptake of hexose phosphates

 

uraA

-13

Uracil transport

 

xseA

-10

Exonuclease VII

CRP

yaaH

-11

Inner membrane protein

 

yccFS

-36/-27

Inner membrane protein

 

ychM

-27

Unknown function

 

ydeA

-35

MFS transporter

 

ydeP

-12

Acid resistance protein

EvgA

yegD

-14

Actin family protein

 

ygiR

-12

Unknown function

 

yhfC

-40

MFS transporter

ArcA

yhhQ

-15

Unknown function

 

yhjV

-14

Putative transporter protein

 

yieG

-17

Putative transporter protein

 

yliG

-14

Unknown function

 

ynjE

-22

Putative sulfur transferase

 

yoaG

-28

Unknown function

 

yobD

-28

Unknown function

 

Z2059

-11

Prophage CP-933O protein

 

Z2274

-20

Unknown function

 

Z2389

-9

Prophage CP-933R protein

 

Z2605

-20

Putative arginine/ornithine antiporter

 

Z2751

-15

Unknown function

 

Z3622

-9

Putative resolvase

 

Z4223

-13

Unknown function

 
  1. * Indicates that some genes in the known operon are not listed because these genes did not satisfy the criteria to be RpoS-dependent.
  2. - Indicates negative regulation.