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Table 1 Tolerance genes of Z. mobilis ZM4 against at least two phenolic aldehydes identified by gene expression analysis

From: Transcriptome analysis of Zymomonas mobilis ZM4 reveals mechanisms of tolerance and detoxification of phenolic aldehyde inhibitors from lignocellulose pretreatment

Category

Locus

Product

Expressiona

H

G

S

Amino acid metabolisms

ZMO0200

Anthranilate phosphoribosyltransferase

2.88

2.38

 

Amino acid metabolisms

ZMO1303

Pyrroline-5-carboxylate reductase

2.35

2.23

 

Amino acid metabolisms

ZMO1499

Phosphoribosyl-ATP diphosphatase

3.46

3.91

2.17

Amino acid metabolisms

ZMO1500

Imidazole glycerol phosphate synthase subunit HisF

2.92

2.93

 

Amino acid metabolisms

ZMO1501

1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino) methylideneamino]imidazole-4-carboxamide isomerase

2.30

2.10

 

Amino acid metabolisms

ZMO1502

Imidazole glycerol phosphate synthase subunit HisH

2.14

2.25

 

Carbohydrate metabolism

ZMO0493

Glutamine synthetase, type I

2.80

3.21

2.52

Carbohydrate metabolism

ZMO0759

Hydroxyacylglutathione hydrolase

2.66

2.66

 

Carbohydrate metabolism

ZMO0788

Gluconate 2-dehydrogenase

2.73

2.69

 

Carbohydrate metabolism

ZMO0833

UDP-N-acetylenolpyruvoylglucosamine reductase

2.06

2.14

 

Energy metabolism

ZMO0003

Adenylylsulfate kinase

2.40

2.01

 

Energy metabolism

ZMO0004

Sulfate adenylyltransferase subunit 1

3.39

2.31

 

Energy metabolism

ZMO0005

Sulfate adenylyltransferase subunit 2

3.09

2.13

 

Energy metabolism

ZMO1116 b

Oxidoreductase

2.53

3.60

2.47

Lipid metabolism

ZMO1222

3-oxoacyl-ACP reductase

2.73

2.11

 

Metabolism of cofactors and vitamins

ZMO0006

Uroporphyrin-III C-methyltransferase

3.09

2.05

 

Metabolism of cofactors and vitamins

ZMO0474

3,4-dihydroxy-2-butanone 4-phosphate synthase

2.71

2.34

 

Metabolism of cofactors and vitamins

ZMO1132

Lipoyl synthase

2.17

2.33

 

Metabolism of cofactors and vitamins

ZMO1190

Bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase

2.42

2.41

 

Metabolism of cofactors and vitamins

ZMO1544

Cobalt chelatase, pCobS small subunit

2.84

2.01

 

Metabolism of other amino acids

ZMO1309

Leucyl aminopeptidase

2.33

2.03

 

Genetic/environmental/cellular process/organismal systems

ZMO0074

Hypothetical protein

5.02

3.61

 

Genetic/environmental/cellular process/organismal systems

ZMO0143 c

ATP - binding cassette superfamily

2.11

2.00

 

Genetic/environmental/cellular process/organismal systems

ZMO0282

RND family efflux transporter subunit MFP

6.05

7.14

2.55

Genetic/environmental/cellular process/organismal systems

ZMO0283

Hydrophobe/amphiphile efflux - 1 (HAE1) family transporter

5.92

6.59

2.63

Genetic/environmental/cellular process/organismal systems

ZMO0472

rpsU-divergently transcribed protein

3.03

2.55

 

Genetic/environmental/cellular process/organismal systems

ZMO0486

Hypothetical protein

2.76

2.41

 

Genetic/environmental/cellular Process/organismal systems

ZMO0799

ABC - 2 type transporter

2.35

3.64

2.17

Genetic/environmental/cellular Process/organismal systems

ZMO0800

ABC transporter

2.23

3.99

2.19

Genetic/environmental/cellular process/organismal systems

ZMO0801

Secretion protein HlyD family protein

2.09

3.59

 

Genetic/environmental/cellular process/organismal systems

ZMO0965

Efflux pump membrane protein

2.08

5.02

 

Genetic/environmental/cellular process/organismal systems

ZMO1253

Cytochrome C biogenesis protein

2.76

2.45

 

Genetic/environmental/cellular process/organismal systems

ZMO1254

Redoxin domain-containing protein

2.28

2.12

 

Genetic/environmental/cellular process/organismal systems

ZMO1527

Acriflavin resistance protein

2.75

2.11

 

Genetic/environmental/cellular process/organismal systems

ZMO1528

Acriflavin resistance protein

4.24

3.28

 

Genetic/environmental/cellular process/organismal systems

ZMO1530

KpsF/GutQ family protein

3.34

2.13

 

Genetic/environmental/cellular process/organismal systems

ZMO1601

Ribonuclease H

2.08

2.13

 

Genetic/environmental/cellular process/organismal systems

ZMO1727

Aminotransferase

3.02

2.09

 

Unassigned

ZMO0020

Hypothetical protein

3.08

2.14

2.36

Unassigned

ZMO0021

Hypothetical protein

3.11

2.89

2.38

Unassigned

ZMO0073

CBS domain-containing protein

5.98

4.13

 

Unassigned

ZMO0157

d-isomer-specific 2-hydroxyacid dehydrogenase NAD-binding protein

2.28

2.22

 

Unassigned

ZMO0268

Hypothetical protein

2.32

2.70

 

Unassigned

ZMO0270

Hypothetical protein

2.41

2.91

 

Unassigned

ZMO0384

Hypothetical protein

 

2.89

2.07

Unassigned

ZMO0388

Hypothetical protein

 

2.30

2.15

Unassigned

ZMO0391

Hypothetical protein

 

2.76

2.22

Unassigned

ZMO0440

Hypothetical protein

2.25

2.36

 

Unassigned

ZMO0683

Csy2 family CRISPR-associated protein

2.55

2.47

 

Unassigned

ZMO0757

TPR repeat-containing protein

2.02

2.92

 

Unassigned

ZMO0758

Isochorismatase hydrolase

2.41

2.55

 

Unassigned

ZMO0763

Tetratricopeptide domain-containing protein

2.48

2.01

 

Unassigned

ZMO0798

NodT family RND efflux system outer membranelipoprotein

2.27

4.58

2.54

Unassigned

ZMO0844

Sporulation domain-containing protein

2.32

2.09

 

Unassigned

ZMO1334

Hypothetical protein

4.11

2.96

 

Unassigned

ZMO1346

Hypothetical protein

2.23

2.39

 

Unassigned

ZMO1380

AraC family transcriptional regulator

5.17

2.60

2.21

Unassigned

ZMO1386

Hypothetical protein

3.44

2.39

 

Unassigned

ZMO1391

Diacylglycerol kinase catalytic region

2.42

2.69

 

Unassigned

ZMO1399

Fatty acid hydroxylase

3.94

2.98

 

Unassigned

ZMO1406

Alpha/beta hydrolase

3.94

2.26

 

Unassigned

ZMO1437

Lysine exporter protein

3.72

2.42

2.81

Unassigned

ZMO1529

RND family efflux transporter subunit MFP

2.54

2.32

 

Unassigned

ZMO1576

Short-chain dehydrogenase/reductase SDR

3.77

2.17

 

Unassigned

ZMO1602

Hypothetical protein

2.77

2.17

 

Unassigned

ZMO1696

Zinc-binding alcohol dehydrogenase

2.46

2.94

 

Unassigned

ZMO1821

Hypothetical protein

3.62

4.26

 

Unassigned

ZMO1880

Hypothetical protein

2.58

2.90

 

Unassigned

ZMO1885

NADH:flavin oxidoreductase/NADH oxidase

11.37

3.33

2.67

Unassigned

ZMO1984

Aldo/keto reductase

3.87

2.06

 
 

ZZM4_0133

Hypothetical protein

2.39

2.75

 
 

pzmob1_p38

Hypothetical protein

2.29

2.02

 
  1. aExpression levels with at least twofold or greater increase in response to phenolic aldehyde functional p-hydroxyphenyl group (H), guaiacyl group (G), and syringyl group (S), represented by 4-hydroxybenzaldehyde, vanillin, and syringaldehyde, respectively
  2. bBolded indicates reductase-related functional genes
  3. cBolded italic indicates transporter-related functional genes