Table 1

Genes differentially expressed in strain 13 after growth in the presence of homocysteine or cystine.

Gene name (synonym)

Function/similarity

Transcriptome analysis

qRT-PCR

Homocysteine/cysteine

p-value

Homocysteine/cysteine


T-boxCys controlled genes

cpe1321 (cysE)

Serine acetyl-transferase

7.91

0.0001

cpe1322 (cysK)

OAS-thiol-lyase

6.86

0.0002

120

cpe0967

Na+-H+/Amino acid symporter

15.53

6.6E-06

cpe0947

Na+-H+/Amino acid symporter

7.01

0.0002

S-box controlled genes

cpe2177 (metK)

SAM-synthase

2.7

0.015

14

cpe2317

probable Na+-H+ antiporter

1.4

0.01

Iron sulfur clusters

cpe1786

Rrf2-type regulator

3.41

0.0001

14

cpe1785 (iscS)

Cysteine desulfurase

3.36

0.00027

cpe1784 (iscU)

Iron sulfur cluster assembly

6.73

0.00008

cpe1783 (trmU)

Methylaminomethyl-2-Thiouridylate-

3.5

< 1E-05

methyltransferase

cpe1469

IscS-like protein

2.5

0.0009

8

cpe0664

HesB-like protein

3.83

1.5E-05

11

Functions associated to redox

cpe2511 (fer)

Ferredoxin [3Fe-4S]

3.2

< 1E-05

cpe777 (rubR1)

Rubredoxin

1.8

0.001

cpe0780 (rubR2)

Rubredoxin

2.4

< 1E-05

4.3

cpe0778

Probable flavohemoprotein

1.62

0.005

cpe1331 (rubY)

Rubrerythrine

1.64

0.01

cpe2447 (fer)

Ferredoxin 2[2Fe-2S]

0.52

0.01

cpe0782

Alkyl hydrogen peroxide reductase

0.49

< 1E-05

cpe2537

cytochrome c-type biogenesis protein

0.41

< 1E-05

cpe2538

Unknown

0.25

3.5E-05

Carbon metabolism

cpe2308

Mannose-1-phosphate

3.5

2.3E-05

guanylyltransferase

cpe0103 (ldh)

Lactate dehydrogenase

2.73

0.004

15

Transporters, membrane or exported proteins

cpe2151

Mercure-copper binding protein

5.1

< 1E-05

cpe1371

Na+-dependent symporter

3.3

0.009

5

cpe0049

Membrane protein

3.02

< 1E-05

cpe2456

Membrane protein

2.84

1E-05

cpe0554

Protein with signal sequence

2.74

0.0002

cpe0383

Holin-like protein

2.6

0.004

cpe2595

Na+/H+ antiporter

0.34

< 1E-05

Virulence

cpe0163

Perfringolysin O

0.3

0.02

0.16

cpe1523 (nagL)

Hyaluronidase

1.82

9.5E-05

2.3

Proteins of unknown function

cpe1078

Unknown (73 aa)

10.8

< 1E-05

cpe1079

Unknown

7.77

3E-05

cpe1385

Unknown

4.2

6E-05

cpe1386

Unknown (85aa)

8.73

< 1E-05

cpe1387

Unknown (71aa)

6.4

5E-06

cpe1388

Unknown

5.94

5E-05

cpe0651

Unknown

4.8

< 1E-05

cpe0015

Unknown

4.7

2E-05

cpe0114

Unknown (74 aa)

4.49

1.33E-05

cpe0113

Unknown (75 aa)

3.98

6E-05

cpe0264

Unknown (98 aa)

3.94

0.001

cpe2619

Unknown (63 aa)

3.88

< 1E-05

cpe0067

Unknown

3.6

1E-05

cpe0102

Unknown (90 aa)

3.52

0.01

cpe1472

Unknown

3.36

0.00735

cpe2037

Unknown (89 aa)

3.16

0.0006

cpe0363

Unknown (118 aa)

3.11

0.002


The results presented are representative of 8 differential hybridizations using RNA preparations obtained from 4 independent cultures. aa means amino acids.

AndrĂ© et al. BMC Microbiology 2010 10:234   doi:10.1186/1471-2180-10-234

Open Data