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Table 1 Summary of the distribution of yeast-prion-like proteins in the eukaryotic domain

From: The evolutionary scope and neurological disease linkage of yeast-prion-like proteins in humans

Species short name

Species binomial name (some clade names are listed in this column for clarity)

TOTALS OF YEAST-PRION-LIKE PROTEINSa

CONSERVATION OF PRION-LIKE PROTEINS FROM YEASTb

CONSERVATION OF YEAST-PRION-LIKE PROTEINS FROM HUMANb

(1) TOTAL # of N/Q-rich proteins (NQPs)

(2) TOTAL # of prion predictions (yeast background)

(3) TOTAL # of prion predictions (organism’s background)

(4) # of YEAST proteins conserved as orthologs (total 5879)

(5)

(6)

(7) # of HUMAN proteins conserved as orthologs (total 101,933)

(8)

(9)

YEAST

Saccharomyces cerevisiae

285 ( 4 . 9  %)

186 (3 . 2  %)

186 ( 3 . 2  %)

--

--

--

4076 (4.0 %)

9 (0.7 %)

4

TRICHOPLAX

Trichoplax adhaerens

220 (1.9 %)

308 (2.7 %)

276 ( 2 . 4  %)

2223 (38 %)

3 (1.0 %)

5

9992 (9.8 %)

24 (1.9 %)

24

SPONGE

Amphimedon queenslandica

192 (1.4 %)

217 (1.6 %)

166 (1.2 %)

2230 (38 %)

1 (0.4 %)

5

9565 (9.4 %)

16 (1.3 %)

27

 

Protostomia

         

DROSOPHILA

Drosophila melanogaster

3085 (11  %)

2064 ( 7 . 7  %)

1653 ( 5 . 9  %)

2176 (37 %)

26 (9.1 %)

14

10138 (10 %)

117 (9.2 %)

72

DAPHNIA

Daphnia pulex

461 (1.5 %)

509 (1.7 %)

307 (1.0 %)

2209 (38 %)

5 (1.8 %)

4

10609 (10 %)

44 (3.5 %)

30

C_ELEGANS

Caenorhabditis elegans

827 (2.6 %)

1112 ( 3 . 5  %)

732 (2.3 %)

2044 (35 %)

11 (3.9 %)

14

8670 (8.5 %)

41 (3.2 %)

27

OYSTER

Crassostrea gigas

1059 (2.3 %)

1414 (3.1 %)

988 (2.1 %)

2333 (40 %)

7 (2.5 %)

14

12934 (13 %)

126 (9.9 %)

89

APLYSIA

Aplysia californica

1342 ( 4 . 9  %)

954 ( 3 . 5  %)

645 ( 2 . 4  %)

2310 (39 %)

14 (4.9 %)

12

11017 (11 %)

35 (2.8 %)

30

LEECH

Helobdella robusta

3593 ( 15  %)

2053 ( 8 . 8  %)

1605 ( 6 . 7  %)

2159 (37 %)

13 (4.6 %)

7

10834 (11 %)

65 (5.1 %)

30

 

Deuterostomia

         

SEA_URCHIN

Strongylocentrotus purpuratus

1007 (2.8 %)

909 (2.5 %)

581 (1.6 %)

2355 (40 %)

12 (4.2 %)

13

13596 (13 %)

117 (9.2 %)

59

ZEBRAFISH

Danio rerio

671 (1.6 %)

805 (1.9 %)

617 (1.5 %)

2389 (41 %)

5 (1.8 %)

6

20283 (20 %)

213 (17 %)

143

FUGU

Takifugu rubripes

940 (2.0 %)

912 (1.9 %)

719 (1.5 %)

2314 (39 %)

4 (1.4 %)

4

20340 (20 %)

205 (17 %)

129

CHICKEN

Gallus gallus

276 (1.7 %)

227 (1.4 %)

178 (1.1 %)

2176 (37 %)

8 (2.8 %)

3

18441 (18 %)

247 (19 %)

144

ANOLIS

Anolis caroliniensis

798 (2.5 %)

624 (1.9 %)

468 (1.5 %)

2311 (39 %)

5 (1.8 %)

3

22209 (22 %)

320 (25 %)

197

MOUSE

Mus musculus

1001 (1.8 %)

675 (1.2 %)

497 (0.9 %)

2397 (41 %)

6 (2 %)

5

30987 (30 %)

514 (41 %)

314

HUMAN

Homo sapiens

1269 (1.2 %)

1012 (1.0 %)

766 (0.7 %)

2399 (41 %)

5 (1.8 %)

3

--

--

--

OPOSSUM

Monodelphis domestica

382 (1.7 %)

298 (1.4 %)

225 (1.0 %)

2329 (40 %)

7 (2.5 %)

3

22205 (22 %)

290 (23 %)

197

XENOPUS

Xenopus laevis

348 (1.5 %)

376 (1.7 %)

317 (1.4 %)

2299 (39 %)

9 (3.2 %)

4

19444 (19 %)

226 (18 %)

131

LATIMERIA

Latimeria calumnae

407 (1.7 %)

415 (1.8 %)

330 (1.4 %)

2276 (39 %)

7 (2.5 %)

2

19756 (19 %)

273 (22 %)

145

CIONA

Ciona intestinalis

283 (1.8 %)

491 (3.2 %)

389 ( 2 . 5  %)

2213 (38 %)

4 (1.4 %)

5

11547 (11 %)

72 (5.7 %)

67

HYDRA

Hydra vulgaris

712 (3.2 %)

489 (2.2 %)

431 (1.9 %)

2235 (38 %)

14 (4.9 %)

11

10605 (10 %)

41 (3.2 %)

36

CHOANAFLAGELLATE

Monosiga brevicollis

273 (3.0 %)

134 (1.5 %)

85 (0.9 %)

2015 (34 %)

4 (1.4 %)

5

6632 (6.5 %)

12 (0.9 %)

7

DICTYOSTELIUM

Dictyostelium discoideum

5345 ( 40  %)

3067 ( 23  %)

2567 ( 19  %)

2199 (37 %)

65 (23 %)

34

5839 (5.8 %)

37 (2.9 %)

31

PLASMODIUM

Plasmodium falciparum

2649 ( 50  %)

1248 ( 23  %)

1143 ( 22  %)

1351 (23 %)

23 (8.1 %)

20

3207 (3.1 %)

30 (2.4 %)

25

CHONDRUS

Chondrus crispus

49 (0.5 %)

93 (0.9 %)

62 (0.6 %)

1716 (29 %)

6 (2 %)

7

3790 (3.7 %)

2 (0.2 %)

5

 

Plants

         

PHYSCOMITRELLA

Physcomitrella patens

169 (0.5 %)

323 (0.9 %)

246 (0.7 %)

2279 (39 %)

5 (1.8 %)

3

6450 (6.3 %)

6 (0.5 %)

5

SELAGINELLA

Selaginella moellendorffii

285 (0.8 %)

243 (0.7 %)

164 (0.5 %)

2247 (38 %)

1 (0.4 %)

1

6370 (6.3 %)

10 (0.8 %)

4

AMBORELLA

Amborella trichopoda

171 (0.8 %)

251 (1.2 %)

164 (0.8 %)

2288 (39 %)

4 (1.4 %)

4

6079 (6.0 %)

13 (1.0 %)

4

BANANA

Musa acuminata

421 (1.0 %)

403 (1.0 %)

295 (0.7 %)

2281 (39 %)

7 (2.5 %)

4

6328 (6.2 %)

5 (0.4 %)

4

RICE

Oryza sativa

1118 (1.6 %)

928 (1.4 %)

540 (0.8 %)

2264 (39 %)

6 (2 %)

8

6144 (6.0 %)

9 (0.7 %)

8

ARABIDOPSIS

Arabidopsis thaliana

342 (1.0 %)

570 (1.7 %)

412 (1.2 %)

2300 (39 %)

7 (2.5 %)

7

6235 (6.2 %)

11 (0.9 %)

9

CHLAMYDOMONAS

Chlamydomonas reinhardtii

441 (3.0 %)

180 (1.2 %)

142 (1.0 %)

1914 (33 %)

1 (0.4 %)

0

5235 (5.2 %)

7 (0.6 %)

2

TRYPANOSOMA

Trypanosoma cruzi

359 (1.8 %)

225 (1.1 %)

172 (0.9 %)

1539 (26 %)

8 (2.8 %)

3

4032 (3.9 %)

9 (0.7 %)

13

GUILLARDIA

Guillardia theta

318 (1.3 %)

238 (1.0 %)

163 (0.7 %)

2115 (36 %)

4 (1.4 %)

4

6409 (6.3 %)

6 (0.5 %)

5

  1. aThe organisms are listed in the same order that they appear in the phylogenetic tree in Fig. 1. Organisms with percentages of NQPs in their proteomes >10 % are in bold underline text; those otherwise with >4 % NQPs in their proteomes are in bold italics. Where other organisms reach the level of the % prion predictions of these organisms, their totals of prion predictions are also given in bold italics. ‘Yeast background’ is the setting in the PLAAC program wherein the background composition in the yeast proteome is used for prion predictions, similarly for ‘Organism’s background’
  2. bColumns (5), (6), (8) and (9) contain the following data
  3. (5): # of YEAST N/Q-rich proteins conserved as N/Q-rich orthologs (total in YEAST =285), with the percentages this is of total YEAST NQPs in brackets
  4. (6): # of YEAST prion predictions conserved as prion predictions (total in YEAST =186) (yeast background)
  5. (8): # of HUMAN N/Q-rich proteins conserved as N/Q-rich orthologs (total in HUMAN =1269), with the percentages this is of total HUMAN NQPs in brackets
  6. (9): # of HUMAN prion predictions conserved as prion predictions (total in HUMAN =1012) (yeast background)