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Table 1 Selected differentially expressed genes (log twofold) of P. pastoris cultivated in presence of acetic acid, furaldehydes (HMF and furfural) and sugarcane biomass hydrolysate. In the case of P value > 0.05, the log2fold is not shown

From: Physiological characterization and transcriptome analysis of Pichia pastoris reveals its response to lignocellulose-derived inhibitors

Gene ID

Gene Name

Description

Acetic acid 2 g.L−1

Acetic acid 6 g.L−1

FH 0.9/

0.15 g.L−1

FH 1.5/

0.25 g.L−1

Hydrolysate 10%

Hydrolysate 30%

Go term associated

GQ6703442

OYE3-2*

*Conserved NADPH oxidoreductase containing flavin mononucleotide (FMN), homologous to Oye2p with different ligand binding and catalytic properties, has potential roles in oxidative stress response and programmed cell death

3.12

3.47

3.30

Oxidation–reduction process

GQ6700918

PPR1

Pyrimidine pathway regulatory protein 1

0.53

1.03

0.40

0.82

0.28

Macromolecule methylation, macromolecule modification, RNA metabolic process,

GQ6703443

OYE3-1*

*Conserved NADPH oxidoreductase containing flavin mononucleotide (FMN), homologous to Oye2p with different ligand binding and catalytic properties, has potential roles in oxidative stress response and programmed cell death

2.72

3.09

3.12

Oxidation–reduction process

GQ6701720

NTL101*

*Putative nitrilotriacetate monooxygenase family FMN-dependent oxidoreductase

2.45

2.94

2.20

Oxidation–reduction process

GQ6702862

SOR1

*Unique sorbitol dehydrogenase in Pichia pastoris whose promoter has activity similar to GAP promoter using different carbon sources, expression in S. cerevisiae is induced in the presence of sorbitol or xylose

2.26

3.77

1.32

3.01

2.36

Oxidation–reduction process

GQ6700554

ALD4

Mitochondrial aldehyde dehydrogenase; required for growth on ethanol and conversion of acetaldehyde to acetate

1.51

1.32

Oxidation–reduction process

GQ6702661

2.74

2.12

0.81

0.91

2.48

2.63

Ion transport, cation transport, transmembrane transport, metal ion transport, localization

GQ6702266

YCT1

High affinity cysteine transporter

1.35

4.43

4.81

2.87

-

Transmembrane transport, localization

GQ6703957

2.36

2.51

1.98

3.04

Transmembrane transport, localization

GQ6702465

VBA1

Vacuolar basic amino acid transporter 1

1.59

0.97

2.69

Transmembrane transport, localization

GQ6702095

TPO3

Polyamine transporter 3

2.53

1.81

1.98

2.63

Transmembrane transport, localization

GQ6703034

2.01

1.22

1.32

1.20

2.56

Transmembrane transport, localization

GQ6703337

*DUR3-2

*Plasma membrane transporter for both urea and polyamines, expression in S. cerevisiae is highly sensitive to nitrogen catabolite repression and induced by allophanate, the last intermediate of the allantoin degradative pathway

2.34

1.32

4.92

1.14

Transmembrane transport, localization, localization,

GQ6705065

*Hypothetical protein not conserved

4.83

3.77

4.66

4.50

1.94

2.34

GQ6702974

*Hypothetical protein not conserved

2.81

2.71

2.90

3.90

-

1.54

GQ6700086

*RPH1

*JmjC domain-containing histone demethylase

2.80

2.85

2.84

2.43

0.97

1.15

GQ6701722

*QOR2

*Putative quinone oxidoreductase (NADPH:quinone reductase), similar to Scheffersomyces stipitis QOR2, and similarity to Zinc-binding dehydrogenases

2.86

2.73

3.22

Oxidation–reduction process,

GQ6701721

*NTL100

*Putative nitrilotriacetate monooxygenase family FMN-dependent oxidoreductase

2.52

2.69

2.96

Oxidation–reduction process

GQ6701716

*CAO1

*Copper amine oxidase similar to Schizosaccharomyces pombe CAO1

2.90

-

6.17

Amine metabolic process, oxidation–reduction process

GQ6702273

*DAL1

*Allantoinase, expression in S. cerevisiae sensitive to nitrogen catabolite repression

2.36

3.73

2.59

2.78

Oxidation–reduction process

GQ6705251

-

*Hypothetical protein conserved (domain: GAL4)

2.75

3.12

2.81

2.56

Regulation of metabolic process, biological regulation

GQ6701500

*SOA1-6

*Putative protein with similarity to allantoate permease, similar to the allantoate permease (Dal5p) subfamily of the major facilitator superfamily

2.18

2.51

3.08

Transmembrane transport, localization, localization,

GQ6703338

AMD2

2.65

1.89

4.47

1.66

GQ6701041

CAR1

2.36

-

3.85

1.89

GQ6703874

NCS6

2.79

2.79

2.80

1.53

1.54

GQ6704853

PIC2

Mitochondrial phosphate carrier protein 2 (Phosphate transport protein 2) (PTP 2) (Pi carrier isoform 2) (mPic 2)

2.75

3.38

2.88

2.67

-

GQ6702197

PST2

Protoplast secreted protein 2

-

-

4.56

1.27

0.90

GQ6703286

STP3

Zinc finger protein STP3

4.84

3.91

4.40

3.90

-

GQ6700345

ZWF1

Glucose-6-phosphate dehydrogenase (G6PD)

  

0.74

0.67

  

Single-organism carbohydrate metabolic process, small molecule metabolic process, oxidation–reduction process, hexose metabolic process,

  1. *information manually annotated