Skip to main content

Table 1 Genes upregulated under iron-limiting condition and in the fur mutant

From: Global transcriptional response of Caulobacter crescentus to iron availability

Gene CB15

Gene NA1000

Predicted functiona

Fold changeb

   

WT DP/WT Fe

∆fur Fe/WT Fe

Transport

CC_0026

CCNA_00026

PAS-family sensor histidine kinase (heme)

4.70

5.95

CC_0027

CCNA_00027

PKHD-type hydroxylase (FeII)

15.65

26.39

CC_0028c

CCNA_00028

TonB-dependent receptor

28.27

55.08

CC_0029

CCNA_00029

Lysine exporter protein

2.18

2.03

CC_0139

CCNA_00138

TonB-dependent receptor

20.21

33.27

CC_0683

CCNA_00719

Type I secretion adaptor protein hlyD

2.42

2.81

CC_0684

CCNA_00720

Type I protein secretion ATP-binding protein

2.25

2.80

CC_0711

CCNA_00748

Ferrous iron transport protein A

9.10

9.04

CC_0712

CCNA_00749

Ferrous iron transport protein B

6.13

5.96

CC_2191

CCNA_02272

Hypothetical protein

4.49

7.10

CC_2192

CCNA_02273

Glutathione peroxidase (DUF3297)

6.27

9.09

CC_2193

CCNA_02274/75

EF hand protein/hypothetical protein (DUF4198)

64.82

167.73

CC_2194

CCNA_02277

Hemin receptor (TonB-dependent receptor)

17.90

25.29

CC_2195

CCNA_02278

Putative membrane-associated alkaline phosphatase

4.49

7.27

CC_2196

CCNA_02279

Disulfide bond formation protein B

2.51

3.17

CC_2197

CCNA_02280

Ubiquinone biosynthesis protein COQ7 (Iron)

2.52

3.23

CC_2927

CCNA_03022

Transporter

27.09

34.54

CC_2928

CCNA_03023

TonB-dependent receptor

15.36

22.72

CC_3059

CCNA_03155

Transporter

23.57

22.29

CC_3060

CCNA_03156

Putative periplasmic protein (DUF2271)

24.53

32.44

CC_3061

CCNA_03157

Putative membrane spanning protein (DUF4198)

44.13

51.11

CC_3062

CCNA_03158

Iron-sulfur cluster assembly/repair protein ApbE

17.44

24.66

CC_3063

CCNA_03159

Sulfite reductase (NADPH) flavoprotein (Heme)

12.25

16.47

CC_3693

CCNA_03807

Organic solvent resistance transport system Ttg2D protein

6.48

2.50

CC_3694

CCNA_03808

Organic solvent resistance transport system Ttg2C protein

5.62

2.19

Riboflavin biosynthesis

CC_0885

CCNA_00929

Diaminohydroxyphosphoribosylaminopyrimidine deaminase

10.83

4.99

CC_0886

CCNA_00930

Riboflavin synthase alpha chain

8.01

3.57

CC_0887

CCNA_00931

3,4-dihydroxy-2-butanone-4-phosphate synthase

12.18

3.70

CC_0888

CCNA_00932

6,7-dimethyl-8-ribityllumazine synthase

13.72

4.33

CC_0889

CCNA_00933

Putative peptidase

5.75

3.08

Miscellaneous

CC_0220

CCNA_00220

Thiol-disulfide isomerase and thioredoxin

3.80

3.31

CC_0884

CCNA_00928

Transcriptional regulator, GntR family

5.16

2.45

CC_1968

CCNA_02046

Nitrogen regulatory protein P-II GlnB

2.87

3.45

CC_1969

CCNA_02047

Glutamine synthetase GlnA

2.32

2.33

CC_3263

CCNA_03372

Bacterioferritin-associated ferredoxin (Fe-S cluster)

56.96

40.04

Hypothetical

CC_0155

CCNA_00154

Hypothetical protein DUF2061 (predicted membrane)

13.07

5.99

CC_0681

unannotated

Hypothetical protein

7.97

3.77

CC_0682

unannotated

Hypothetical protein

10.03

3.88

CC_0719

CCNA_00756

Hypothetical protein

9.81

2.89

CC_2367

CCNA_02452

Hypothetical protein

23.64

26.74

CC_2904

CCNA_02998

Hypothetical protein

9.64

13.35

CC_3452

CCNA_03566

Hypothetical protein

2.52

2.51

  1. a The terms in parenthesis are Pfam domains found in hypothetical proteins or metals predicted to bind the proteins. Metal cofactors were found by searching the ExPASy and Brenda databases.
  2. b Values are fold changes in the expression levels comparing wild type cells exposed to iron-limiting versus iron-replete conditions (WT DP/ WT Fe) or comparing fur mutant strain versus wild type strain both exposed to iron-replete condition (∆fur Fe/WT Fe). The values were obtained as the average of the four last probes for each gene.
  3. c According to previously proposed in earlier work [6], the most probable initiation codon of CC0028 is at position +234 relative to the initiation codon annotated in the genome. Thus, the last four probes designed for CC0028 are not useful to measure its expression. The values showed for this gene correspond to the average of four initial probes of the CC0027 gene, which hybridize within the final portion of CC0028.
Back to article page

BMC Genomics

ISSN: 1471-2164

Contact us