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Table 3 Common differentially expressed genes of Pseudomonas veronii wild-type during transition in soils

From: Genome-wide gene expression changes of Pseudomonas veronii 1YdBTEX2 during bioaugmentation in polluted soils

Gene ID

Gene

Gene function

Log2 fold-change in comparisona

Sand vs APM

Silt vs APM

Clay vs APM

Jonction vs APM

One-way ANOVAb

Natural soils vs Controls

Jonction vs Controls

PVE_r1g2130

lpdV

dihydrolipoyl dehydrogenase

2.07

2.42

0.31

2.14

2.00

2.00

PVE_r1g2131

bkdB

dihydrolipoamide branched chain transacylase

3.07

2.39

1.75

3.11

2.57

2.00

PVE_r1g2132

bkdA2

2-oxoisovalerate dehydrogenase subunit beta

3.65

3.16

2.50

3.78

3.25

3.58

PVE_r1g2133

bkdA1

2-oxoisovalerate dehydrogenase subunit alpha

3.44

3.13

1.60

3.84

3.01

3.58

PVE_r1g5053

hibA

probable 3-hydroxyisobutyrate dehydrogenase

2.83

3.40

1.86

3.10

2.91

2.92

PVE_r1g5054

ALDH6B2

methylmalonate-semialdehyde dehydrogenase

3.63

3.54

2.91

3.98

3.45

3.81

PVE_r1g2545

narK

nitrate/nitrite transporter NarK

3.80

1.97

0.00

4.20

2.76

3.87

PVE_r1g2546

narG

respiratory nitrate reductase 1 alpha chain

3.72

2.33

−0.60

3.68

2.77

3.37

PVE_r1g2547

narY

respiratory nitrate reductase 2 beta chain

3.51

2.41

0.03

3.35

2.68

3.04

PVE_r1g2548

narJ

nitrate reductase molybdenum cofactor assembly chaperone

2.84

2.58

0.19

2.85

2.36

2.56

PVE_r1g2549

narI

respiratory nitrate reductase 1 gamma chain

2.60

2.14

0.11

2.56

2.04

2.29

PVE_r1g0681

copA

copper-exporting P-type ATPase A

2.39

3.30

0.38

3.51

2.56

3.22

PVE_r1g6093

copC

copper resistance protein C

4.53

6.00

1.61

3.22

5.04

3.05

PVE_r2g0903

copC

copper resistance protein C

1.27

6.39

1.21

3.35

5.00

3.12

PVE_p0049

copB

copper resistance protein B

3.00

2.86

1.63

2.58

2.68

2.45

PVE_p0050

 

hypothetical secreted protein

3.19

3.64

2.11

3.19

3.18

3.03

PVE_p0051

copA

copper resistance protein A

3.02

3.50

1.38

2.25

2.97

2.13

PVE_p0052

 

hypothetical secreted protein

4.04

6.54

0.70

3.53

5.35

3.26

PVE_r1g0242

 

membrane protein

2.78

2.25

2.60

2.51

2.57

2.51

PVE_r1g0243

pgaB

poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase

2.57

1.88

2.34

2.57

2.09

2.52

PVE_r1g0244

pgaC

poly-beta-1,6-N-acetyl-D-glucosamine synthase

2.29

1.40

2.03

2.52

2.09

2.46

PVE_r1g0245

pgaD

biofilm PGA synthesis protein PgaD

2.72

1.66

2.11

2.56

2.07

2.46

  1. a Log2 fold-change in condition compared with control in soil (FDR < 0.05, p < 0.01)
  2. b.One-way ANOVA (analysis of variance) in the condition “soil”; natural or polluted vs controls (LQ and APM)
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Environmental Microbiome

ISSN: 2524-6372