Table 3 Genes upregulated exclusively in response to iron limitation

Amino acid metabolism

CC_0013

CCNA_00013

Protein-PII uridylyltransferase GlnD

2.62

CC_0272

CCNA_00273

Peptide deformylase (FeII)

2.81

CC_0977^b

CCNA_01028

Cytosol aminopeptidase (Zinc or Manganese)

4.62

CC_1612

CCNA_01684

Phenylalanine-4-hydroxylase (Iron)

2.33

CC_2481^b

CCNA_02566

Membrane alanine aminopeptidase (Zinc)

2.90

CC_2532

CCNA_02615

Homogentisate 1,2-dioxygenase (Iron)

2.38

CC_2533

CCNA_02616

4-hydroxyphenylpyruvate dioxygenase (Iron)

2.49

CC_3686

CCNA_03800

Diaminopimelate epimerase

2.25

Iron-sulfur cluster assembly/repair

CC_0061

CCNA_00059

Oxygen-insensitive NADH nitroreductase

3.31

CC_0062

CCNA_00060

Mitochondrial-type Fe-S cluster assembly protein NFU

4.60

CC_0132^b

CCNA_00131

Rrf2 family protein

3.30

CC_1857

CCNA_01933

Hypothetical protein

5.66

CC_1858

CCNA_01934

HesB protein family

5.66

CC_1859

CCNA_01935

FeS assembly SUF system protein

5.50

CC_1860

CCNA_01936

Cysteine desulfurase/Selenocysteine lyase

7.58

CC_1861

CCNA_01937

SufD protein

5.90

CC_1862

CCNA_01938

ATP-dependent transporter sufC

7.89

CC_1863

CCNA_01939

ADP-ribosylglycohydrolase

8.30

CC_1864

CCNA_01940

ABC transporter-associated protein sufB

7.81

CC_1865

CCNA_01941

Cysteine desulfhydrase/Selenocysteine lyase

7.09

CC_1866^b

CCNA_01942

Rrf2 family transcriptional regulator

7.98

Oxidative stress

CC_0141

CCNA_00140

Glutathione synthetase

2.55

CC_0993

CCNA_01045

Conserved hypothetical cytosolic protein (DUF419)

2.84

CC_0994^b

CCNA_01046

Peptide methionine sulfoxide reductase msrA

3.07

CC_1315

CCNA_01375

Lactoylglutathione lyase

2.97

CC_1316^b

CCNA_01376

Glutathione S-transferase

3.93

Heat shock response

CC_0685

CCNA_00721

Chaperonin GroEL

2.33

CC_0686^b

CCNA_00722

Co-chaperonin GroES

2.27

CC_0878

CCNA_00922

ClpB protein

2.71

CC_2258

CCNA_02341

Small heat shock protein

5.50

CC_2467

CCNA_02552

ATP-dependent Clp protease adaptor protein ClpS

2.42

CC_2468

CCNA_02553

ATP-dependent clp protease ATP-binding subunit ClpA

2.63

CC_2509

CCNA_02594

Endopeptidase htpX

8.09

CC_2510^b

CCNA_02595

Hypothetical protein

8.94

CC_3098^b

CCNA_03195

RNA polymerase sigma factor RpoH

5.16

CC_3592^b

CCNA_03706

Small heat shock protein

3.42

CC_3727^b

CCNA_03843

ATP-dependent endopeptidase hsl proteolytic subunit hslV

3.48

CC_3728

CCNA_03844

ATP-dependent endopeptidase hsl ATP-binding subunit hslU

2.49

Detoxification/Resistance

CC_0321

CCNA_00323

Low-affinity zinc transport protein

2.80

CC_0807

CCNA_00850

Cation/multidrug efflux pump acrB2

4.59

CC_0808

CCNA_00851

Periplasmic multidrug efflux lipoprotein precursor

4.14

CC_3195^b

CCNA_03299

Outer membrane protein oprM

3.32

CC_3197

CCNA_03301

Cation/multidrug efflux pump acrB

2.70

CC_3443

CCNA_03556

Quaternary ammonium compound-resistance protein

2.34

CC_3681^b

CCNA_03795

Tellurium resistance protein terB

4.33

DNA metabolism

CC_0260

CCNA_00261

Ribonucleoside-diphosphate reductase beta chain (Iron)

2.79

CC_2229

CCNA_02312

SLA2 protein (TraB family)

2.64

CC_2590

CCNA_02673

Excinuclease ABC subunit A

2.22

CC_3492

CCNA_03607

Ribonucleoside-diphosphate reductase alpha chain (Iron)

3.51

Miscellaneous

CC_0653

CCNA_00690

CarD-like transcriptional regulator

2.14

CC_0679

CCNA_00718

Abortive infection protein

2.52

CC_0827

CCNA_00870

Putative cytosolic protein (DUF1178)

2.77

CC_0883

CCNA_00927

Hypothetical protein

3.65

CC_2018

CCNA_02097

Periplasmic glucan glucosyltransferase

2.11

CC_2129

CCNA_02213

NADH dehydrogenase (Fe-S cluster)

3.60

CC_2506

CCNA_02592

Thioesterase

2.48

CC_2653^b

CCNA_02736

Nitroreductase family

3.37

CC_2659

CCNA_02742

Oxalate/formate antiporter (MSF transporter)

3.11

CC_2926^c

CCNA_03021

Hypothetical protein

4.14

CC_3002

CCNA_03097

Aldo/keto reductase family protein

4.69

CC_3019

CCNA_03113

Membrane-associated phospholipid phosphatase

3.48

CC_3385^b

CCNA_03496

Putative cytosolic protein (DUF328)

2.96

CC_3406

CCNA_03517

Cytochrome c oxidase polypeptide I coxA

2.32

CC_3692^c

CCNA_03806

Outer membrane lipoprotein

11.60

CC_3695^c

CCNA_03809

Organic solvent resistance transport system permease

4.68

CC_3696^c

CCNA_03810

Organic solvent resistance transport system ATP-binding protein

4.81