Table 1

Selected genes with down-regulated expression profiles in the Δso2426 mutant relative to wild-type MR-1

Mean (Δso2426/WT) mRNA ratio


Time (min) post Cr(VI) addition


Gene

Description

5

30

60

90

180

1440


Cellular processes


SO2280

Bicyclomycin resistance protein

0.64

0.36

0.43

0.23

0.24

0.39

SO4274

Undecaprenol kinase, putative

0.67

0.7*

0.57

0.56*

0.8*

0.36


Energy metabolism


SO0101

Formate dehydrogenase (fdnG)

0.3

0.32

0.55

0.56

0.29

0.36

SO0102

Formate dehydrogenase (fdnH)

0.37

0.31

0.72

0.53

0.25

0.67*

SO0104

FdhE protein (fdhE)

0.32

0.74*

0.45

0.61*

0.43

0.76*

SO0809

Azurin precursor (azu)

0.44

0.69

0.28

0.84

0.3

0.4

SO3034

Ferric iron reductase protein, putative

1.09*

0.61

0.91*

0.25

0.45

0.42

SO4151

Polysaccharide deacetylase family protein

0.29

0.3

0.35

0.6

0.24

0.23

SO4503

Formate dehydrogenase accessory protein FdhD

1.13*

0.56

0.53

0.5

0.28

0.36

SO4506

Iron-sulfur cluster-binding protein

0.42

0.28

0.77

0.45

0.47

0.39

SO4509

Formate dehydrogenase, alpha subunit

0.4

0.29

0.63

0.38

0.23

0.37


Hypothetical


SOA0058

Hypothetical protein

1.19

0.82*

1.0*

0.37*

0.29

0.27

SO0496

Conserved hypothetical protein

0.59

0.4

0.48

0.45

0.46

0.66*

SO1188

Conserved hypothetical protein

0.01

0.013

0.007

0.006

0.004

1.52*

SO1189

Conserved hypothetical protein

0.003

0.022

0.006

0.004

0.005

1.68*

SO1190

Conserved hypothetical protein

0.01

0.014

0.02

0.009

0.02

1.03*

SO1770

Glycerate kinase, putative

0.56

0.48

0.35

0.18

0.22

0.72*

SO1967

Hypothetical protein

0.97*

0.78*

0.34

0.55*

0.72

0.42

SO2128

Hypothetical protein

0.38

0.43

0.32

1.21

0.54

0.89*

SO2425

Hypothetical protein

0.21

0.29

0.23

0.09

0.14

1.63*

SO2469

Conserved hypothetical protein

0.35

0.53

0.68

0.62

0.46

0.96*

SO3025

Conserved hypothetical protein

0.17

0.16

0.16

0.2

0.23

0.73*

SO3062

Hypothetical protein

0.48

0.15

0.16

0.14

0.21

1.21*

SO4502

Conserved domain protein

0.93*

0.74*

0.54

0.54*

0.26

0.3

SO4504

Conserved hypothetical protein

0.2

0.06

0.15

0.14

0.23

0.13

SO4505

Conserved hypothetical protein

0.23

0.16

0.45

0.23

0.29

0.16

SO4689

Conserved hypothetical protein

0.51

0.43

0.4

0.45

0.54

0.76*

SO4719

Conserved hypothetical protein

0.23

0.36

0.36

0.31

0.18

0.62*


Protein synthesis


SO0106

Selenocysteine-specific translation elongation factor (selB)

0.38

0.72*

0.57

0.76*

0.46

0.83*


Regulatory functions


SO0916

Transcriptional regulator, MarR family

0.64

0.42

0.4

0.34

0.33

0.84*

SO0544

Sensory box histidine kinase

0.53

0.31

0.35

0.51

0.52

0.58*

SO4477

Transcriptional regulatory protein CpxR (cpxR)

0.54

0.32

0.37

0.35

0.43

0.89*

SO4567

Transcriptional regulator, AsnC family

0.41

0.39

0.44

0.79

0.34

0.45


Transport and binding proteins


SO0139

Ferritin (ftn)

0.2

0.22

0.11

0.08

0.05

0.19

SO1580

TonB-dependent heme receptor

0.32

0.39

0.37

0.19

0.23

0.92*

SO1771

Permease, GntP family

0.88*

0.23

0.43

0.37

0.14

0.2

SO2045

Cation efflux family protein

0.57

0.24

0.3

0.22

0.13

1.19*

SO3030

Siderophore biosynthesis protein AlcA (alcA)

0.67

0.27

0.81*

0.21

0.15

0.69*

SO3031

Siderophore biosynthesis protein, putative

0.52

0.34

0.3

0.16

0.08

1.37*

SO3032

Siderophore biosynthesis protein, putative

0.5

0.33

0.25

0.14

0.06

0.73*

SO3033

Ferric alcaligin siderophore receptor

0.73

0.34

0.29

0.17

0.07

0.77*

SO3063

Sodium:alanine symporter family protein

0.26

0.18

0.12

0.15

0.18

0.34

SO4150

Transporter, putative

0.07

0.12

0.11

0.34

0.27

0.3

SO4516

Ferric vibriobactin receptor (viuA)

0.59

0.54

0.37

0.21

0.16

0.67*

SO4712

ABC transporter, ATP-binding protein, putative

0.49

0.84*

0.59

0.77*

0.54

0.59*

SO4743

TonB-dependent receptor, putative

0.08

0.16

0.09

0.06

0.05

0.43


The mRNA ratios (Δso2426 mutant/wild type) per time interval represent mean values derived from six DNA microarray experiments performed with total RNA isolated from three independent cultures (plus two dye reversal reactions per biological replicate) in chromate-amended LB medium.

*Expression ratio values determined to be statistically non-significant (p > 0.05).

Chourey et al. BMC Genomics 2008 9:395   doi:10.1186/1471-2164-9-395

Open Data