Gene Family | Query Gene* | Paralogy relationship missed | Co-orthology relationship missed | Orthologs not detected in Taxa | Different orthology assignment |
---|---|---|---|---|---|
Notch | Human Notch1 | Notch2, Notch3, and Notch4 are not detected as paralogs of Notch1. | Notch2, Notch3, and Notch4 are not detected as co-orthologous to Drosophila N. | Amphibian Ray-finned fish Cephalochordata Arachnida | 3 different C.elegans genes are detected for Hs Notch1, Notch2, and Notch3, suggesting that duplications giving rise to this family took place before the divergence between protostomes and deuterostomes, and that Notch2, and Notch3 were lost in Drosophila. |
Calnexin/Calreticulin | Human Calnexin | Calmegin and Calreticulin are not detected as paralogs of Calnexin. | Calmegin is not detected as a Human co-ortholog to Drosophila CG9906 gene. | Amphibian Ray-finned fish | Calmegin is detected to be orthologous to another Drosophila gene than CG9906, suggesting Calmegin and Calnexin already existed as two duplicates before the divergence between protostomes and deuterostomes and Calmegin was secondary lost in C. elegans |
ENPEP/TRHDE/LNPEP/ERAP/LRAP/ANPEP | Human TRHDE | ENPEP, LNPEP, ERAP, LRAP, and ANPEP are not detected as paralogous to TRHDE. | None | None | Each human gene of this family has been assigned a distinct ortholog in protostomes (e.g. Drosophila) suggesting this multigenic family emerged before the separation of Protostomes and Deuterostomes. |
PSMB5/PSMB8 | Human PSMB5 | PSMB8 is not detected as paralogous to PSMB5 | PSMB8 is not detected as co-orthologous to the same Drosophila gene than PSMB5. | Ray-finned fish Avian Cephalochordata. Amphibian | PSMB5 and PSMB8 are each assigned a distinct Drosophila ortholog suggesting they already existed as two copies in the last common ancestor of human and Drosophila. |
PSMB7/PSMB10 | Human PSMB7 | PSMB10 is not detected as paralogous to PSMB7. | PSMB10 is not detected as co-orthologous to the same Drosophila gene than PSMB7. | Ray-finned fish Avian Cephalochordata. Amphibian | PSMB7 and PSMB10 are each assigned a distinct Drosophila ortholog suggesting they already existed as two copies in the last common ancestor of human and Drosophila. |
Cathepsins L, M, P, R | Human Cathepsin R | Cathepsins L, M and P are not detected as paralogous to Cathepsin R. | None | Amphibian Avian Ray-finned fish | Each cathepsin gene is assigned a distinct drosophila ortholog suggesting the cathepsin family emerged before the separation between human and Drosophila. |
Tpp2 | Human Tpp2 | None (not a multigenic family) | None | Drosophila | None |
ERP57 (GPR58) | Human GRP58 | None (not a multigenic family) | None | Fungi Bovine Schistosoma Avian | None |
HSPA5 (GRP78) | Human HSPA5 | None (not a multigenic family) | None | Amphibian Aplysia Lepidopteran Avian Schistosoma | None |
TAP1, TAP2, ABCB9, MDR1 | Human TAP1 | TAP2, ABCB9, and MDR1 are not detected as paralogous to TAP1. | None | Drosophila Avian Amphibian Ray-finned fish | TAP1, and TAP2 are each assigned a distinct C.elegans ortholog and none in Drosophila, suggesting there was already two copies of these genes in the last common ancestor of these two species, and that the two copies were secondary lost in the Drosophila lineage. |
PSME1, PSME2, PSME3 | Human PSME1 | PSME2, and PSME3 are not detected as paralogous to PSME1. | None | Protostomes Ray-finned fish | None |
THOP1, NLN | Human THOP1 | NLN is not detected as paralogous to THOP1 | NLN is not detected as co-orthologous to the same N.crassa gene than THOP1. | Amphibian Bacteria | None |