Table 1 Species included in the present phylome and their genomic coverage
From: The human phylome
Group | Code | Species name | Source | Proteins included (%) | Trees (%) |
|---|---|---|---|---|---|
Primates | Hsa | Homo sapiens | Ensembl | 21,726 (99.1%) | 21,588 (100.0%) |
| Â | Ptr | Pan troglodytes | Ensembl | 17,113 (79.3%) | 19,577 (90.7%) |
| Â | Mmu | Macaca mulatta | Ensembl | 19,285 (89.2%) | 19,765 (91.6%) |
Placental mammals | Mms | Mus musculus | Ensembl | 19,934 (78.9%) | 18,825 (87.2%) |
| Â | Rno | Rattus norvegicus | Ensembl | 18,675 (85.7%) | 18,585 (86.1%) |
| Â | Cfa | Canis familiaris | Ensembl | 16,657 (91.8%) | 18,834 (87.2%) |
| Â | Bta | Bos taurus | Ensembl | 18,457 (79.9%) | 18,736 (86.8%) |
Mammals | Mdo | Monodelphis domestica | Ensembl | 17,004 (80.7%) | 18,013 (83.4%) |
Vertebrates | Gga | Gallus gallus | Ensembl | 12,325 (66.5%) | 15,758 (73.0%) |
| Â | Xtr | Xenopus tropicalis | Ensembl | 14,721 (60.6%) | 15,787 (73.1%) |
| Â | Tni | Tetraodon nigroviridis | Ensembl | 14,896 (53.4%) | 14,585 (67.6%) |
| Â | Fru | Fugu rubripes | Ensembl | 15,834 (72.3%) | 15,155 (70.2%) |
| Â | Dre | Danio rerio | Ensembl | 16,042 (74.9%) | 14,808 (68.6%) |
Chordates | Cin | Ciona intestinalis | Ensembl | 5,588 (50.9%) | 9,421 (43.6%) |
Metazoa | Aga | Anopheles gambiae | Ensembl | 6,131 (43.0%) | 9,310 (43.1%) |
| Â | Dme | Drosophila melanogaster | Ensembl | 6,812 (49.6%) | 9,771 (45.3%) |
| Â | Ame | Apis mellifera | Ensembl | 4,484 (33.4%) | 8,616 (39.9%) |
| Â | Cel | Caenorhabditis elegans | Ensembl | 5,826 (29.8%) | 8,190 (37.9%) |
| Â | Cbr | Caenorhabditis briggsae | Integr8 | 5,171 (39.2%) | 7,899 (36.6%) |
Opisthokonts | Ago | Ashbya gossypii | Integr8 | 2,020 (42.8%) | 3,603 (16.7%) |
| Â | Cal | Candida albicans | Other | 2,733 (33.8%) | 3,899 (18.1%) |
| Â | Cgl | Candida glabrata | Integr8 | 2,129 (41.1%) | 3,627 (16.8%) |
| Â | Cne | Cryptococcus neoformans | Integr8 | 2,532 (38.5%) | 4,102 (19.0%) |
| Â | Dha | Debaromyces hansenii | Integr8 | 2,302 (36.5%) | 3,885 (18.0%) |
| Â | Ecu | Encephalitozoon cuniculi | Integr8 | 626 (32.8%) | 1,203 (5.6%) |
| Â | Gze | Giberella zeae | Integr8 | 3,076 (26.4%) | 4,412 (20.4%) |
| Â | Kla | Kluyveromyces lactis | Integr8 | 2,077 (39.1%) | 3,715 (17.2%) |
| Â | Ncr | Neurospora crassa | Other | 2,521 (23.7%) | 4,221 (19.6%) |
| Â | Sce | Saccharomyces cerevisiae | Ensembl | 2,317 (35.1%) | 3,769 (17.5%) |
| Â | Spb | Schizosaccharomyces pombe | Integr8 | 2,421 (48.8%) | 4,102 (19.0%) |
| Â | Yli | Yarrowia lipolytica | Integr8 | 2,487 (38.1%) | 4,152 (19.2%) |
Amoebozoa | Ddi | Dictyostelium discoideum | Integr8 | 3,843 (29.4%) | 5,165 (23.9%) |
Plants | Ath | Arabidopsis thaliana | Integr8 | 9,450 (26.6%) | 5,390 (25.0%) |
| Â | Cre | Chlamydomonas reinhardtii | Other | 2,303 (11.7%) | 3,504 (16.2%) |
Diplomonad | Gth | Gillardia theta | Integr8 | 161 (35.7%) | 458 (2.1%) |
Apicomplexa | Pfa | Plasmodium falciparum | Integr8 | 1,330 (25.3%) | 2,507 (11.6%) |
| Â | Pyo | Plasmodium yoelii | Integr8 | 1,188 (15.3%) | 2,272 (10.5%) |
Kinetoplastida | Lma | Leishmania major | Integr8 | 2,082 (26.0%) | 3,130 (14.5%) |
| Â | Pte | Paramecium tetraurelia | Integr8 | 140 (30.2%) | 345 (1.6%) |