Table 2

Selected differentially expressed proteins detected in Cr(VI)-challenged M9L-grown F1

Gene ID

Functional category

Protein function

Poisson regression coefficient

FDR


Pput 0191

Inorganic ion transport and metabolism

ABC-type nitrate/sulfonate/bicarbonate transport systems periplasmic components-like protein

26.45

3.65E-14

Pput 0190

Secondary metabolites biosynthesis

Taurine dioxygenase

25.54

2.01E-15

Pput 4621

none

hypothetical protein

25.52

8.56E-06

Pput 1872

Cell Motility

methyl-accepting chemotaxis sensory transducer

24.87

2.68E-03

Pput 0391

Coenzyme transport and metabolism

biotin biosynthesis protein BioC

24.69

8.28E-07

Pput 3604

Unknown Function

protein of unknown function DUF1653

24.67

7.60E-03

Pput 1104

Transcription

transcriptional regulator, LysR family

24.67

7.60E-03

Pput 2545

Transcription

transcriptional regulator, LysR family

24.67

7.60E-03

Pput 2963

Replication

ATPase involved in DNA repair-like protein

24.67

7.60E-03

Pput 4712

Post translational modification and protein turnover chaperones

band 7 protein

24.67

7.60E-03

Pput 1882

Amino acid transport and metabolism

ABC transporter related

24.67

1.80E-04

Pput 1060

Carbohydrate transport and metabolism

glucose-6-phosphate 1-dehydrogenase

24.25

3.38E-10

Pput 0247

Inorganic ion transport and metabolism

ABC transporter related

24.11

4.50E-03

Pput 0999

Secondary metabolites biosynthesis

Mammalian cell entry related domain protein

23.78

4.50E-03

Pput 4172

Replication

Ribonuclease H

23.78

4.50E-03

Pput 3319

none

fatty acid cistrans isomerase

23.78

4.50E-03

Pput 0949

Energy production and conversion

protein of unknown function DUF1111

23.78

4.50E-03

Pput 4281

Coenzyme transport and metabolism

putative methyltransferase

23.78

4.50E-03

Pput 3991

Cell wall membrane and envelope biogenesis

MscS Mechanosensitive ion channel

23.78

4.50E-03

Pput 5174

Replication

ATP-dependent DNA helicase Rep

23.78

4.50E-03

Pput 2568

Amino acid transport and metabolism

FAD dependent oxidoreductase

-22.82

2.99E-07

Pput 1812

General function prediction

alpha/beta hydrolase fold

-23.83

2.79E-03

Pput 4237

Amino acid transport and metabolism

spermidine/putrescine ABC transporter ATPase subunit

-23.94

7.11E-29

Pput 2061

Inorganic ion transport and metabolism

catalase/peroxidase HPI

-24.23

2.03E-04

Pput 1736

Energy production and conversion

proton-translocating NADH-quinone oxidoreductase, chain L

-24.31

1.13E-12

Pput 0594

Energy production and conversion

Pyruvate dehydrogenase (acetyl-transferring)

-24.40

1.48E-14

Pput 3083

Energy production and conversion

aldehyde dehydrogenase

-24.55

5.31E-03

Pput 0110

General function prediction

Carbonic anhydrase/acetyltransferase isoleucine patch superfamily-like protein

-24.82

5.31E-03

Pput 4889

Amino acid transport and metabolism

phosphoribosyl-ATP pyrophosphohydrolase

-24.82

1.47E-03

Pput 0527

Amino acid transport and metabolism

L-seryl-tRNA(Sec) selenium transferase

-25.04

3.99E-04

Pput 4915

Carbohydrate transport and metabolism

glycogen/starch/alpha-glucan phosphorylase

-25.23

2.03E-04

Pput 1789

None

hypothetical protein

-25.31

5.33E-06

Pput 0932

General function prediction

intracellular protease, PfpI family

-25.63

2.52E-06

Pput 2569

None

hypothetical protein

-25.68

2.52E-06

Pput 4267

General function prediction

transferase hexapeptide repeat containing protein

-25.68

2.52E-06

Pput 1947

Energy production and conversion

cytochrome c, class I

-25.68

1.31E-06

Pput 2567

Amino acid transport and metabolism

extracellular solute-binding protein, family 1

-25.74

7.04E-08

Pput 2463

Cell wall membrane and envelope biogenesis

GCN5-related N-acetyltransferase

-25.92

3.86E-09

Pput 0592

Energy production and conversion

alpha/beta hydrolase fold

-26.07

1.94E-09

Pput 1187

None

hypothetical protein

-26.11

3.65E-14


FDR: False Discovery Rate

The table shows top 20 up-regulated and down-regulated proteins in Cr-shocked, M9L-grown cells of P. putida when compared to unstressed M9L cells. Proteome datasets were analyzed using the Poisson regression model combined with False Discovery Rate (FDR) of 1%.

Thompson et al. BMC Genomics 2010 11:311   doi:10.1186/1471-2164-11-311

Open Data