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Table 1 Methanol regulated genes of P. pastoris as a source of regulated promoters

From: Methanol regulated yeast promoters: production vehicles and toolbox for synthetic biology

Ranked expression level (methanol)a

Short name

ORF nameb

Co-regulation: 1 = with A/D/F; 2 = with A; 3 = with D/F; 4 = up at glucose limitc

Methanol inductiond

1

DAS1

PP7435_Chr3-0352

1;4

Strong

2

AOX2

PP7435_Chr4-0863

2;4

Strong

3

AOX1

PP7435_Chr4-0130

1;4

Strong

4

DAS2

PP7435_Chr3-0350

3;4

Strong

5

FDH1

PP7435_Chr3-0238

1;4

Strong

6

PMP20

PP7435_Chr1-1351

 

Strong

7

THI11

PP7435_Chr4-0952

 

Weak

8

FLD

PP7435_Chr3-0140

3

Intermediate

9

FBA1-2

PP7435_Chr1-0639

1

Strong

10

SHB17

PP7435_Chr2-0185

3

Intermediate

11

FGH1

PP7435_Chr3-0312

1

Intermediate

12

DAK2

PP7435_Chr3-0343

3

Intermediate

13

CTA1

PP7435_Chr2-0137

3

Weak

14

PMP47

PP7435_Chr3-1139

1

Strong

15

MPP1

PP7435_Chr3-0349

3

Weak

16

FBP1

PP7435_Chr3-0309

3

Weak

17

PIM1-2

PP7435_Chr1-0484

2

Weak

18

PAS_chr1-1_0037

PP7435_Chr1-0336

1

Strong

19

PAS_chr3_1071

PP7435_Chr3-0094

1

Strong

20

PEX11

PP7435_Chr2-0790

3;4

Intermediate

21

PEX13

PP7435_Chr2-0217

1

Weak

22

PAS_chr1-1_0343

PAS_Chr1-1_0343

4

Intermediate

23

PEX12

PP7435_Chr4-0200

1

Weak

24

INP1

PP7435_Chr4-0597

3

Weak

25

PEX6

PP7435_Chr1-0900

1

Weak

26

PEX17

PP7435_Chr4-0347

1

Weak

27

ATG37

PP7435_Chr4-0369

1

Weak

28

TAL1-2

PP7435_Chr2-0358

1

Intermediate

29

PEX5

PP7435_Chr2-0195

3

Intermediate

30

PEX2

PP7435_Chr3-1201

3

Weak

31

PAS_chr3_1020

PP7435_Chr3-0149

3

Strong

32

PEX1

PP7435_Chr3-0122

1

Weak

33

PEX26

PP7435_Chr4-0482

1

Weak

34

PEX10

PP7435_Chr1-1379

3

Weak

35

PEX14

PP7435_Chr4-0157

3

Weak

36

PAS_chr3_0408

PP7435_Chr3-0805

 

Intermediate

37

ARO7

PP7435_Chr4-0965

3

Weak

38

PEX8

PP7435_Chr1-1134

1

Weak

39

PAS_chr1-4_0459

PP7435_Chr1-1255

1

Intermediate

40

FAD1

PP7435_Chr1-0246

 

Intermediate

41

YLR177 W

PP7435_Chr1-0659

3

Intermediate

42

PEX11C

PP7435_Chr1-1331

3

Weak

43

ACS2

PP7435_Chr3-0810

 

Weak

44

PAS_chr3_0439

PAS_chr3_0439

2

Intermediate

45

RKI1-2

PP7435_Chr4-0797

3

Intermediate

  1. aRelative gene expression levels were derived from signal intensities on DNA microarrays at methanol induction [16, 17] and ordered from highest to lowest
  2. bORF names derived from published P. pastoris genome sequences [19, 20]
  3. cThe gene correlation was calculated using transcriptomic datasets comprising 29 different conditions. The log2 fold change data was used to look for co-regulations in this data set. The data was processed via the DeGNServer to calculate Spearman´s rank correlation using a CLR-based Network and an association cut-off value of 3.8 [21]. Co-regulation was analyzed with three genes involved in methanol utilization: AOX1 (A), DAS1 (D), FBA1-2 (F). Up at glucose limit means that expression is deregulated in glucose limited culture conditions without methanol (data from [12])
  4. dInduction on methanol was classified based on the transcriptional regulation patterns obtained by [16, 17] by comparing expression levels of cells grown on methanol to cells grown on glucose or glycerol
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Microbial Cell Factories

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