Skip to main content

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%)
  Ptr Pan troglodytes Ensembl 17,113 (79.3%) 19,577 (90.7%)
  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%)
  Rno Rattus norvegicus Ensembl 18,675 (85.7%) 18,585 (86.1%)
  Cfa Canis familiaris Ensembl 16,657 (91.8%) 18,834 (87.2%)
  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%)
  Xtr Xenopus tropicalis Ensembl 14,721 (60.6%) 15,787 (73.1%)
  Tni Tetraodon nigroviridis Ensembl 14,896 (53.4%) 14,585 (67.6%)
  Fru Fugu rubripes Ensembl 15,834 (72.3%) 15,155 (70.2%)
  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%)
  Dme Drosophila melanogaster Ensembl 6,812 (49.6%) 9,771 (45.3%)
  Ame Apis mellifera Ensembl 4,484 (33.4%) 8,616 (39.9%)
  Cel Caenorhabditis elegans Ensembl 5,826 (29.8%) 8,190 (37.9%)
  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%)
  Cal Candida albicans Other 2,733 (33.8%) 3,899 (18.1%)
  Cgl Candida glabrata Integr8 2,129 (41.1%) 3,627 (16.8%)
  Cne Cryptococcus neoformans Integr8 2,532 (38.5%) 4,102 (19.0%)
  Dha Debaromyces hansenii Integr8 2,302 (36.5%) 3,885 (18.0%)
  Ecu Encephalitozoon cuniculi Integr8 626 (32.8%) 1,203 (5.6%)
  Gze Giberella zeae Integr8 3,076 (26.4%) 4,412 (20.4%)
  Kla Kluyveromyces lactis Integr8 2,077 (39.1%) 3,715 (17.2%)
  Ncr Neurospora crassa Other 2,521 (23.7%) 4,221 (19.6%)
  Sce Saccharomyces cerevisiae Ensembl 2,317 (35.1%) 3,769 (17.5%)
  Spb Schizosaccharomyces pombe Integr8 2,421 (48.8%) 4,102 (19.0%)
  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%)
  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%)
  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%)
  Pte Paramecium tetraurelia Integr8 140 (30.2%) 345 (1.6%)
  1. For each species: the 'Proteins included' column indicates the number of proteins present in trees of the human phylome and the percentage they represent; and the 'Trees' column indicates the number of trees in the phylome with proteins from that species (and the percentage from the phylome it represents). 'Source' indicates the database from which the protein data for that species were retrieved.