Table 3: Up-regulated annotated genes in carbapenem resistant Pa CMC-097.

Locus_tag

Microarray

Fold Ratio

RNA-Seq

Fold Ratio

Gene Name

Product

Common Pathways/Functional Classifications

PA0513

4.35

11.77

nirG

Heme d1 biosynthesis protein

Biosynthesis of heme d1/Denitrification/Energy metabolism

PA0517

8.13

9.63

nirC

Cytochrome c55X

Biosynthesis of heme d1/Denitrification/Energy metabolism

PA0518

8.48

17.32

nirM

Cytochrome C-551

Biosynthesis of heme d1

Denitrification/Energy metabolism

PA0519

4.11

18.07

nirS

Nitrite reductase

Denitrification/Energy metabolism

PA0567

5.42

8.16

yqaE

Hypothetical protein

Membrane proteins

PA0887

5.63

17.12

acsA

Acetyl-CoA synthetase

Pyruvate metabolism/Central intermediary metabolism

PA0906

4.1

1.9

alpR

Transcriptional regulator

PA1151

28.91

imm2

Pyocin-S2 immunity protein

Adaptation and protection

PA1243

4.72

4155.07

Sensor/response regulator hybrid protein

Two-component regulatory systems

PA1705

4.04

pcrG

Type 3 secretion regulator

Type 3 Secretion/Protein secretion/export apparatus

PA1706

13.34

pcrV

Type 3 secretion protein

Type 3 Secretion/Protein secretion/export apparatus

PA1707

9.24

pcrH

Regulatory protein

Type 3 Secretion/Protein secretion/export apparatus

PA1708

16.04

popB

Translocator protein

Type 3 Secretion/Protein secretion/export apparatus

PA1710

17.64

exsC

Exoenzyme S synthesis protein

Type 3 Secretion/Protein secretion/export apparatus

PA1711

7.23

exsE

Hypothetical protein

Type 3 Secretion/Protein secretion/export apparatus

PA1718

86.42

pscE

Type 3 export protein

Type 3 Secretion/Protein secretion/export apparatus

PA1719

7.26

pscF

Type 3 export protein

Type 3 Secretion/Protein secretion/export apparatus

PA1930

16.66

2989.98

Chemotaxis transducer

Chemotaxis/Adaptation and protection

PA2142

6.04

5.36

yhxC

Short-chain dehydrogenase

Metabolic Enzymes

PA2144

4.10

7.75

glgP

Glycogen phosphorylase

Metabolic Enzymes/Cell wall/LPS/capsule

PA2146

7.11

13.39

yciG

Hypothetical protein

Metabolic Enzymes

PA2147

9.02

22.08

katE

Catalase HPII

Metabolic Enzymes/Adaptation and protection

PA2152

4.68

10.97

Trehalose synthase

Metabolic Enzymes

PA2158

5.54

9.22

Alcohol dehydrogenase

Metabolic Enzymes

PA2164

4.01

7.95

Glycosyl hydrolase

Metabolic Enzymes/Biosynthesis of secondary metabolites

PA2165

4.90

8.75

glgA

Glycogen synthase

Metabolic Enzymes/Energy metabolism

PA2573

4.23

9.28

Chemotaxis transducer

Chemotaxis/Adaptation and protection

PA3038

4.53

7.11

opdQ

Porin

Transport of small molecules

PA3187

6.13

38.98

gltK

ATP-binding protein

ABC transporters/Glucose transport

PA3188

10.20

8.50

gltG

Probable permease

ABC transporters/Glucose transport

PA3189

4.16

16.62

gltF

Probable permease

ABC transporters/Glucose transport

PA3190

8.18

47.30

gltB

Probable substrate-binding protein

ABC transporters/Glucose transport

PA3235

12.90

12.45

yjcH

Hypothetical protein

Membrane protein

PA3719

9.43

14.64

armR

MexR anti-repressor ArmR

Antibiotic resistance and susceptibility/Beta-Lactam resistance

PA3721

5.60

10.64

nalC

Transcriptional regulator

Antibiotic resistance and susceptibility/Beta-Lactam resistance

PA3841

6.55

exoS

Exoenzyme S

Type 3 Secretion/Secreted toxin

PA3842

16.24

spcS

Chaperone

Type 3 Secretion/Chaperone & heat shock protein

PA4171

8.91

9.94

Protease

Putative enzymes

PA4218

4.55

6.43

Amp

Transporter

Antibiotic resistance and susceptibility/Membrane proteins/Transport of small molecules

PA4220

7.94

8.21

fptB

Hypothetical protein

Hypothetical, unclassified, unknown

PA4228

6.40

16.34

pchD

2,3-dihydroxybenzoate-AMP ligase

Pyochelin synthesis/Transport of small molecules

PA4229

11.12

15.58

pchC

Pyochelin biosynthetic protein

Pyochelin synthesis/Transport of small molecules

PA4230

4.95

11.12

pchB

Iso-chorismate-pyruvate lyase

Pyochelin synthesis/Transport of small molecules

PA4231

4.83

12.66

pchA

Salicylate biosynthesis iso-chorismate synthase

Pyochelin synthesis/Transport of small molecules

PA4276

4.6

1.8

SecE

Preprotein translocase subunit SecE

PA4738

9.22

6.48

yjbJ

Hypothetical protein

Metabolic pathways/Hypothetical, unclassified, unknown

PA4773

4.30

7.42

speD2

Hypothetical protein

Metabolic pathways/Hypothetical, unclassified, unknown

PA4915

15.31

125.79

Chemotaxis transducer

Chemotaxis/Adaptation and protection/Two-component system

PA5240

9.0

1.4

trxA

Thioredoxin