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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)