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Table 1 Identification of DtxR binding sites in the genome sequence of C. glutamicum

From: The DtxR protein acting as dual transcriptional regulator directs a global regulatory network involved in iron metabolism of Corynebacterium glutamicum

CDS1

Gene

Predicted DtxR binding motif2

Distance to translational start codon3

Differential gene expression in C. glutamicum IB2103 measured by

    

DNA microarray (ratio)4

Real-time RT-PCR (relative expression)5

cg0466*

-

TTAAGTTAGCATAGCCTTA

141

+3.2

+1160

cg0748*

-

ATAGGATAGGTTAACCTGA

25

+3.0

+29

cg0771*

-

GTCGGGCAGCCTAACCTAA

40

+5.3

+239

cg0922*

-

TAAGGTTTGCCTAATCTTT

30

+4.4

+176

cg0924*

-

TTAGGTAACCTAACCTCAC

63

+4.4

+2000

cg0926*

-

TTAGGTTAGGCTCTAATAT

173

+4.0

+185

cg1405*

-

TTTTGTTAGGCTTGCCTAG

33

+4.3

+198

cg1418*

-

TTAGGTAAGGTTTGCATAC

30

+1.8

+119

cg2234*

-

TTAGGCAAGGCTACCTTTT

4

+3.2

+1980

cg2445*

hmuO

GTAGGTGTGGGTAACCTAA

120

+5.6

+203

cg2782*

ftn

TTATGCTGCGCTAACCTAT

37

-3.3

+0.02

cg3327*

dps

TCAGGATAGGACAACCTAA

61

-3.4

+0.01

cg3404*

-

TTAGGCTATCCTAACGCAA

overlap

+3.2

+364

cg0160

-

AATG GTTAGGCTAACCTTA

overlap

+3.4

+1870

cg0445

sdhCD

TAAAGTAAGGCTATCCTAA

111

-2.5

+0.12

cg0527

-

TTAGGCTTGCCATACCTAT

11

+3.2

+63

cg1120

ripA

TGAGGTTAGCGTAACCTAC

32

+4.9

+359

cg1930

-

TTAGGTAAAGCTTGCCTAT

90

+4.8

+1210

cg1996

cglIM

TTAGGATTCTCTCAACTAA

199

+1.7

+3.8

cg2311

-

TCAAGTAAGGTTTACCTTA

overlap

+3.0

+37

cg2796

-

GAAGGCAAGCCAAACTTAA

18

+5.3

+1610

cg3082

-

TTCTGTGAGGTTAACTTTT

254

+1.1

+19

cg3119

fpr2

TTAGGTTAGGTTCACCGTG

204

+2.2

+18

cg3156

-

TAAGGCAAGCCTAAATTAG

97

+5.0

+304

cg0405

-

TAAGGATAACCTTGCCTTA

28

n.d.

+1010

cg0470

-

TTAGGTTAAGCTAATCTAG

32

n.d.

+978

cg0591

-

TTAGTAAAGGCTCACCTAA

91

n.d.

+310

cg0955

-

TTACGTGAGCGTAGCCGAA

200

n.d.

+2.8

cg1642

-

TTAGGTTAGGCAAGCCATA

39

n.d.

+4.4

cg3247

cgtR11

ATCAGTAAGGCTAGACTAA

87

n.d.

+5.5

cg3394

-

TTAAGGTAAGTTCAGCTAA

37

n.d.

+4.6

cg1070

-

ATAGGTTATCCAAGCCTAA

18

n.d.

n.d.

cg1088

-

TTAAGTCAGTGTTACCTAA

82

n.d.

n.d.

cg1966

-

TAACTTTGACATAACCTAA

67

n.d.

n.d.

cg2224

xerC

GTGTGTGAGGCAAGCCTAA

93

n.d.

n.d.

cg2399

glk

AAAGATTAAATTCACCTAA

29

n.d.

n.d.

cg2598

-

TTAGGTCAAGCTTGCATTT

20

n.d.

n.d.

cg2651

-

TTAGGTTGTAAAAACCTTA

46

n.d.

n.d.

cg2842

phoU

TTAGGTGATTCAATCTTAA

50

n.d.

n.d.

cg3170

-

TTAACTTTGCCCTACCTAA

190

n.d.

n.d.

  1. 1 Asterisks denote genes whose upstream regions were used for initial HMM processing.
  2. 2 Bases belonging to predicted translational start codons are underlined.
  3. 3 The distance from the last nucleotide of the DtxR binding site to the translational start codon is indicated.
  4. 4 n.d., not detected as differentially expressed by using a significance cut-off of ± 1 (ratio).
  5. 5 n.d.; not detected as differentially expressed by using a significance cut-off of +2 (up-regulation) or +0.5 (down-regulation).
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BMC Genomics

ISSN: 1471-2164

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