Table 2

Expansion of cyclin gene family in different representatives of the Chromalveolata

Stramenopiles

Apicomplexa

Ciliates




Diatoms

Oomycetes



Phatr

Thaps

Phyra

Physo

Cryho

Crypa

Plafa

Playo

Thean

Thepa

Parte

Tetth


General

Number of proteins matching the cyclin HMMER profile

28

57

19

19

12

12

5

5

8

8

144

29

Number of proteins with an InterPro cyclin domain

27

55

18

18

12

12

5

5

4

6

140

27

Specific InterPro domains

IPR004367 Cyclin, C-terminal

7

9

4

5

-

-

-

-

-

-

19

6

IPR006670 Cyclin

6

18

7

7

2

2

2

1

2

1

94

20

IPR006671 Cyclin, N-terminal

18

45

9

10

1

1

-

-

-

-

96

20

IPR011028 Cyclin-like

27

55

18

18

11

11

5

5

4

6

140

27

IPR013763 Cyclin-related

21

47

13

13

6

6

3

2

2

2

72

22

IPR013922 Cyclin-related 2

1

1

1

1

3

3

1

1

1

1

21

1

IPR014400 Cyclin, A/B/D/E

2

4

2

3

1

1

-

-

-

-

42

3

IPR015429 Transcription regulator cyclin

4

3

6

5

2

2

2

2

2

2

6

3

IPR015432 Cyclin H

1

-

1

1

1

1

1

1

1

1

-

-

IPR015451 Cyclin D

-

4

-

-

1

-

-

-

-

-

-

-

IPR015452 G2/mitotic-specific cyclin B3

-

-

-

-

-

-

-

-

-

-

3

1

IPR015453 G2/mitotic-specific cyclin A

1

1

3

3

-

-

-

-

-

-

2

-

IPR015454 G2/mitotic-specific cyclin B

1

-

-

-

-

-

-

-

-

-

9

1

IPR017060 Cyclin L

-

-

1

1

-

-

1

1

-

-

2

-

Total number of genes

10,402

11,776

15,743

19,027

3,994

3,952

5,268

5,268

3,792

4,035

39,642

27,000

Genome size (Mbp)

27.4

32.4

65

95

9.16

9.11

22.85

23.1

8.35

8.3

104

Cyclins/genes total (%)a

0.27

0.48

0.12

0.10

0.30

0.30

0.09

0.09

0.21

0.20

0.36

0.11

Cyclins/genes total (%)b

0.26

0.47

0.11

0.09

0.30

0.30

0.09

0.09

0.11

0.15

0.35

0.10


Abbreviations: Phatr, Phaeodactylum tricornutum; Thaps, Thalassiosira pseudonana; Phyra, Phytophthora ramorum; Physo, Phytophthora sojae; Cryho, Cryptosporidium hominis; Crypa, Cryptosporidium parvum; Plafa, Plasmodium falciparum; Playo, Plasmodium yoelii yoelii; Thean, Theileria annulata; Thepa, Theileria parva; Parte, Paramecium tetraurelia, Tetth, Tetrahymena thermophila. aNumber of cyclins versus total number of genes calculated with the number of proteins that match our cyclin HMMER profile. bNumber of cyclins versus total number of genes calculated with the number of proteins with a InterPro cyclin domain.

Huysman et al. Genome Biology 2010 11:R17   doi:10.1186/gb-2010-11-2-r17

Open Data