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Table 6 Transcriptional regulation of genes involved in methanol metabolism and peroxisome formation

From: Pichia pastoris regulates its gene-specific response to different carbon sources at the transcriptional, rather than the translational, level

Short name Pp

Description

G-D logFC

G-D adjPV

M-D logFC

M-D adjPV

X-D logFC

X-D adjPV

AOX1

Alcohol oxidase (Pichia pastoris)

0.28

 

7.00

***

6.64

***

AOX2

Alcohol oxidase (Pichia pastoris)

0.39

 

7.44

***

7.48

***

CTA1

Catalase A, breaks downhydrogen peroxide in the peroxisomal matrix

1.48

*

5.45

***

6.11

***

DAK2

Dihydroxyacetone kinase, required for detoxification of dihydroxyacetone (DHA)

−0.18

 

4.13

***

2.97

***

DAS1

Dihydroxyacetone synthase variant 1

0.21

 

8.91

***

4.72

***

DAS2

Dihydroxyacetone synthase variant 2

0.10

 

8.78

***

4.89

***

FDH1

NAD(+)-dependent formate dehydrogenase, protect cells from formate

0.44

 

8.74

***

8.75

***

FGH1

S-formylglutathione hydrolase; involved in the detoxification of formaldehyde

0.65

 

5.25

***

4.86

***

FLD

glutathione-dependent formaldehyde dehydrogenase

0.34

 

4.56

***

3.89

***

PEX1

AAA-peroxin

0.50

***

2.56

***

2.75

***

PEX10

Peroxisomal membrane E3 ubiquitin ligase

0.33

 

3.64

***

4.19

***

PEX11

Peroxisomal membrane protein

1.01

***

5.40

***

5.57

***

PEX12

C3HC4-type RING-finger peroxin and E3 ubiquitin ligase

0.36

**

2.50

***

3.75

***

PEX13

Integral peroxisomal membrane protein

0.55

*

4.39

***

3.90

***

PEX14

Peroxisomal membrane peroxin

0.23

 

3.14

***

3.90

***

PEX17

Peroxisomal membrane peroxin

−0.26

 

2.26

***

2.96

***

PEX19

Chaperone and import receptor for newly-synthesized class I PMPs

−0.07

 

0.75

***

2.10

***

PEX2

RING-finger peroxin and E3 ubiquitin ligase

0.75

***

3.48

***

3.63

***

PEX20

Peroxin 20

0.74

***

1.03

***

3.97

***

PEX22

Putative peroxisomal membrane protein

0.11

 

0.55

*

0.85

***

PEX25

Peripheral peroxisomal membrane peroxin

−0.19

 

1.09

***

3.29

***

PEX28

Peroxisomal integral membrane peroxin

0.04

 

0.23

 

1.55

***

PEX29

Peroxisomal integral membrane peroxin

−0.24

 

−0.16

 

0.48

***

PEX3

Peroxisomal membrane protein (PMP)

0.37

**

2.27

***

1.30

***

PEX30

Peroxisomal integral membrane protein

0.10

 

0.09

 

0.47

***

PEX31

Peroxisomal integral membrane protein

0.36

 

0.93

*

2.29

***

PEX4

Peroxisomal ubiquitin conjugating enzyme

0.76

***

2.03

***

4.45

***

PEX5

Peroxisomal membrane signal receptor

0.29

 

4.63

***

4.87

***

PEX6

AAA-peroxin

0.82

***

3.53

***

2.62

***

PEX7

Peroxisomal signal receptor

−0.22

 

0.30

 

1.98

***

PEX8

Intraperoxisomal organizer of the peroxisomal import machinery

0.42

**

2.93

***

3.52

***

PEX26

Peroxisomal membrane protein

0.94

***

3.16

***

4.63

***

PEX11C

Ortholog of PEX11

0.36

 

3.45

***

1.53

***

  1. Log2 fold changes and adjusted P-values (* adjPV < 0.1; ** adjPV < 0.05; *** adjPV < 0.01) are shown (see Additional file 1: Table S1 for detailed data). Up-regulated genes are in bold letters, down-regulated genes in bold and italics.
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BMC Genomics

ISSN: 1471-2164

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