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Table 3 Transcription factor families identified and their proportions in seven microalgae

From: Transcription factors in microalgae: genome-wide prediction and comparative analysis

TF family

Tisochrysis lutea

Pavlova sp

Emiliania huxleyi

Phaeodactylum tricornutum

Nannochloropsis gaditana

Porphyridium purpureum

Chlamydomonas reinhardtii

B3

ABI3/VP1

1 (0.65)

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

1 (0.47)

AP2/ERF

AP2

1 (0.65)

1 (0.78)

58 (12.13)

0 (0)

2 (2.15)

0 (0)

6 (2.83)

ERF

1 (0.65)

6 (4.69)

99 (20.71)

2 (1.02)

2 (2.15)

0 (0)

9 (4.25)

bHLH

0 (0)

0 (0)

0 (0)

8 (4.08)

3 (3.23)

3 (1.51)

8 (3.77)

bZIP

3 (1.94)

3 (2.34)

6 (1.26)

25 (12.76)

11 (11.83)

21 (10.55)

20 (9.43)

C2C2

CO-like

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

1 (0.47)

Dof

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

1 (0.47)

GATA

5 (3.23)

1 (0.78)

4 (0.84)

0 (0)

0 (0)

2 (1.01)

12 (0.66)

LSD

1 (0.65)

1 (0.78)

0 (0)

0 (0)

0 (0)

0 (0)

1 (0.47)

C2H2

8 (5.16)

8 (6.25)

37 (7.74)

4 (2.04)

5 (5.38)

60 (30.15)

5 (2.36)

C3H

13 (8.39)

7 (5.47)

47 (9.83)

11 (5.61)

5 (5.38)

8 (4.02)

22 (10.38)

CCAAT

3 (1.94)

0 (0)

2 (0.42)

3 (1.53)

3 (3.23)

3 (1.51)

1 (0.47)

CPP

1 (0.65)

0 (0)

4 (0.84)

5 (2.55)

1 (1.08)

2 (1.01)

3 (1.42)

CSD

3 (1,94)

4 (3.13)

25 (5.23)

5 (2.55)

1 (1.08)

3 (1.51)

2 (0.94)

DBB

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

1 (0.50)

0 (0)

E2F/DP

2 (1.29)

3 (2.34)

3 (0.63)

5 (2.55)

1 (1.08)

3 (1.51)

3 (1.42)

Fungal TRF

14 (9.03)

8 (6.25)

27 (5.65)

1 (0.51)

10 (10.75)

0 (0)

0 (0)

GARP

G2-like

4 (2.58)

4 (3.13)

5 (1.05)

2 (1.02)

0 (0)

2 (1.01)

4 (1.89)

ARR-B

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

1 (0.47)

Homeobox

HB-other

16 (10.32)

14 (10.94)

28 (5.86)

0 (0)

0 (0)

2 (1.01)

1 (0.47)

TALE

1 (0.65)

1 (0.78)

0 (0)

4 (2.04)

0 (0)

9 (4.52)

3 (1.42)

HSF

9 (5.81)

8 (6.25)

8 (1.67)

67 (34.18)

4 (4.30)

1 (0.50)

2 (0.94)

LIM

2 (1.29)

3 (2.34)

11 (2.30)

0 (0)

0 (0)

2 (1.01)

1 (0.47)

MADS-box

M-type

3 (1.94)

1 (0.78)

1 (0.21)

0 (0)

0 (0)

2 (1.01)

2 (0.94)

mTERF

5 (3.23)

0 (0)

6 (1.26)

5 (2.55)

2 (2.15)

5 (2.51)

4 (1.89)

MYB

MYB (3R)

1 (0.65)

0 (0)

3 (0.63)

2 (1.02)

5 (5.38)

1 (0.50)

1 (0.47)

MYB (2R)

25 (16.13)

20 (15.63)

39 (8.16)

11 (5.61)

8 (8.60)

23 (11.56)

10 (4.72)

MYB-rel

21 (13.55)

15 (11.90)

51 (10.69)

7 (3.57)

7 (7.53)

7 (3.52)

18 (8.65)

MYB-SHAQKYF

1 (0.65)

2 (1.56)

1 (0.21)

7 (3.57)

8 (8.60)

16 (8.04)

4 (1.89)

NF-X1

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

1 (0.47)

NF-Y

NF-YA

0 (0)

1 (0.78)

1 (0.21)

1 (0.51)

1 (1.08)

1 (0.50)

0 (0)

NF-YB

1 (0.65)

1 (0.78)

4 (0.84)

2 (1.02)

2 (2.15)

3 (1.51)

3 (1.42)

NF-YC

3 (1.94)

4 (3.13)

1 (0.21)

8 (4.08)

6 (6.45)

6 (3.02)

2 (0.94)

Nin-like

0 (0)

1 (0.78)

0 (0)

0 (0)

1 (1.08)

4 (2.01)

15 (7.08)

S1Fa-like

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

1 (0.47)

SBP

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

23 (10.85)

Sigma-70

4 (2.58)

4 (3.13)

2 (0.42)

8 (4.08)

4 (4.30)

8 (4.02)

1 (0.47)

TUB

3 (1.94)

7 (5.47)

5 (1.05)

3 (1.53)

1 (1.08)

0 (0)

6 (2.83)

VARL

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

12 (5.66)

Whirly

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

1 (0.47)

WRKY

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

0 (0)

1 (0.47)

 

Total

155

128

478

196

93

199

212

  1. ERF Ethylene Response Factor, bHLH basic helix-loop-helix, bZIP basic leucine zipper, CSD Cold Shock Domain, DBB Double B-box, TRF Transcriptional Regulatory Factor, HSF Heat Shock Factor, mTERF mitochondrial transcription termination factor, SBP SQUAMOSA promotor binding protein, VARL Volvocine Algal RegA Like. Numbers in parentheses correspond to percentage of each family for each species. For the total number of TFs, number in parentheses corresponds to percentage of the predicted proteome dedicated to TFs
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BMC Genomics

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