Skip to main content

Table 4 Transcriptional regulation of transcriptional regulators

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

PAS_chr4_0340

Fungal specific transcription factor domain; Zn2/Cys6 DNA-binding domain

0.35

*

0.72

***

1.50

***

CAT8-2

Zinc cluster transcriptional activator; necessary for derepression of a variety of genes under non-fermentative growth conditions in S. cerevisiae

−0.07

 

2.72

***

5.27

***

YAP1

Basic leucine zipper (bZIP) transcription factor; required for oxidative stress tolerance

0.27

 

1.13

***

1.64

***

PAS_chr1-4_0516

Putative transcription factor

0.94

 

7.81

***

7.86

***

MPP1

Fungal Zn2/Cys6 DNA-binding domain; homolog to Hansenula polymorpha transcription factor involved in peroxisome biogenesis/degradation

0.90

***

6.34

***

6.99

***

AFT1

Transcription factor, possibly involved in carbohydrate metabolism

2.17

***

3.68

***

5.16

***

YPR022C-3

Putative transcription factor

1.57

***

2.33

***

4.55

***

PAS_chr3_0348

Helix-loop-helix DNA-binding domain

0.06

 

0.29

 

3.69

***

ADR1/MXR1

Carbon source-responsive zinc-finger transcription factor, required for transcription of the glucose-repressed gene ADH2, of peroxisomal protein genes, and of genes required for ethanol, glycerol, and fatty acid utilization

1.34

***

1.61

***

2.16

***

RSF2/ROP

Zinc-finger protein; involved in transcriptional control of both nuclear and mitochondrial genes in S. cerevisiae

−0.10

 

1.85

***

−0.24

 

PpTRM1

Zn(II)2Cys6-type transcription factor involved in the positive regulation of methanol utilization genes in P. pastoris and C. boidinii

-0.14

 

0.74

***

0.34

*

SNF1

AMP-activated serine/threonine protein kinase; found in a complex containing Snf4p and members of the Sip1p/Sip2p/Gal83p family; required for transcription of glucose-repressed genes, thermotolerance, sporulation, and peroxisome biogenesis in S. cerevisiae

0.39

**

0.61

**

1.42

***

SNF2

Catalytic subunit of the SWI/SNF chromatin remodeling complex involved in transcriptional regulation; contains DNA-stimulated ATPase activity

0.13

 

0.40

**

−0.37

**

SNF4

Activating gamma subunit of the AMP-activated Snf1p kinase complex

0.19

 

0.35

 

0.76

***

MIG1-1

Transcription factor involved in glucose repression in S. cerevisiae; regulated by the Snf1p kinase and the Glc7p phosphatase;

0.57

*

1.09

**

3.09

***

MIG1-2

Transcription factor involved in glucose repression in S. cerevisiae; regulated by the Snf1p kinase and the Glc7p phosphatase;

−0.76

**

−1.23

***

−0.56

***

SIP2

One of three beta subunits of the Snf1 kinase complex in S. cerevisae

0.00

 

−0.14

 

0.65

***

RDS2

Transcription factor involved in regulating gluconeogenesis and glyoxylate cycle genes; member of the zinc cluster family of proteins; confers resistance to ketoconazole in S. cerevisiae

−0.07

 

0.20

 

0.83

***

PAS_chr1-3_0274

Fungal specific transcription factor; Zn2/Cys6 DNA-binding domain

0.11

 

0.29

 

0.90

***

PAS_chr4_0324

Fungal specific transcription factor; Zn2/Cys6 DNA-binding domain

−3.07

***

−2.99

***

−3.47

***

CTH1

Member of the CCCH zinc finger family

−2.54

***

−2.81

***

−2.92

***

PAS_chr1-1_0422

Myb/SANT-like DNA-binding domain

−0.13

 

−0.57

 

−2.56

***

PAS_chr3_1209

Helix-loop-helix DNA-binding domain

0.16

 

−0.21

 

−2.56

***

PAS_chr1-1_0122

Helix-loop-helix DNA-binding domain

−0.93

 

−0.57

 

−2.33

***

  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.