Shedding light on the expansion and diversification of the Cdc48 protein family during the rise of the eukaryotic cell

Table 1 Repertoire of the Cdc48 family members in selected parasitic lineages and species. A filled black circle indicates the presence of the particular family member in the genome of the organism. For comparison, the repertoire of Homo sapiens is given as well

Species/Lineages	Cdc48	NSF	Pex1	Pex6	Spaf	Spaf-like	NVL	Yta7
Blastocystis hominis	•	•					•	•
Plasmodium, Babesia, Theileria ^a	••	•			•		•
Oomycetes ^a	••	•	•	•	•	•	•	•
Trichomonas vaginalis	•	•			•	•	•
Leishmania, Trypanosoma	•	••	•	•	•		•	•
Giardia	•	•					•
Microsporidae ^b	•	•					•
Entamoeba	•	•			•	•	•
Oikopleura dioica	•	•			•		•	•
Trichuris, Trichinella ^c	•	•			•		•
Parasitic Platyhelminthes ^d	•	•					•	•
Homo sapiens	•	•	•	•	•	•	•	••

^aBased on repertoire of the species listed in Additional file 9: Table S3
^bBased on the genomes of Edhazardia aedis, Enterocytozoon bieneusi, Encephalitozoon cuniculi, Encephalitozoon hellem, Encephalitozoon intestinalis, Encephalitozoon romaleae, Nematocida parisii, and Nosema ceranae
^cBased on genomes of several species of trichuroid nematodes. Note that we did not find Pex1 and Pex6 in the plant pathogens Globodera pallida, Meloidogyne floridensis, and Meloidogyne incognita
^dBased on the genomes of Clonorchis sinensis, Echinococcus granulosus, Echinococcus multilocularis, Schistosoma mansoni, and Schistosoma haematobium. A similar set was found for Hymenolepis microstoma and Schistosoma japonicum, but we did not identify a Yta7 sequence. However, Pex1 and Pex6 sequences were found for the free-living platyhelminthes species Macrostomum lignano, Schmidtea mediterranea, and Girardia tigrina. A partial EST sequence of Pex1 was found for Dugesia japonica

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