Table 1.
Nucleocytoplasmic large DNA viruses (NCLDV) core protein homologs in eukaryotic sequence datasets.
| Eukaryotic Clade | Species | Habitat | Database | DNAP * | MCP * | ATPase * | D5 * | VLTF3 * |
|---|---|---|---|---|---|---|---|---|
| Genomic datasets | ||||||||
| Amoebozoa (Discosea) | Acanthamoeba astronyxis | terrestrial and aquatic | Assembly | √ | √ | √ | ||
| Acanthamoeba castellanii | RefSeq | √ | √ | √ | √ | |||
| Acanthamoeba divionensis | Assembly | √ | √ | √ | ||||
| Acanthamoeba healyi | Assembly | √ | ||||||
| Acanthamoeba lenticulata | Assembly | √ | √ | √ | √ | |||
| Acanthamoeba lugdunensis | Assembly | √ | √ | |||||
| Acanthamoeba mauritaniens | Assembly | √ | √ | √ | √ | |||
| Acanthamoeba pearcei | Assembly | √ | √ | √ | ||||
| Acanthamoeba polyphaga | Assembly | √ | √ | √ | ||||
| Acanthamoeba quina | Assembly | √ | √ | √ | √ | |||
| Acanthamoeba rhysodes | Assembly | √ | ||||||
| Cryptophyta (Pyrenomonadales) | Guillardia theta | sea | RefSeq | MI | ||||
| Euglenozoa | Euglena gracilis | freshwater | Assembly | √ | ||||
| Fungi (Chytridiomycota) | Gonapodya prolifera | freshwater | RefSeq | Phy | √ | √ | Phy | √ |
| Fungi (Glomeromycota) | Rhizophagus irregularis | terrestrial | Assembly | Asf | ||||
| Fungi (Blastocladiomycota) | Allomyces macrogynus | freshwater | RefSeq | Phy | ||||
| Metazoa (Arthropoda) | Daphnia pulex | freshwater | RefSeq | √ | ||||
| Metazoa (Cnidaria) | Exaiptasia pallida | sea | RefSeq | Asf | ||||
| Hydra vulgaris | freshwater | RefSeq | Mi | √ | Mi | √ | ||
| Opisthokonta (Ichthyosporea) | Sphaeroforma arctica | sea | RefSeq | Irma | Irma | |||
| Sphaeroforma sirkka | sea | Assembly | Irma | Irma | Irma | √ | Irma | |
| Rhizaria (Cercozoa) | Bigelowiella natans | sea | RefSeq | Phy + √ | √ | √ | Phy | √ |
| Stramenopiles (Bicosoecida) | Halocafeteria seosinensis | saltern pond | Assembly | √ | ||||
| Stramenopiles (Eustigmatophyceae) | Nannochloropsis limnetica | freshwater | Assembly | Pha | Pha | |||
| Stramenopiles (Hyphochytriomycetes) | Hyphochytrium catenoides | terrestrial | Assembly | Asf | Asf | Asf | Asf | Asf |
| Stramenopiles (Oomycetes) | Phytophthora sp. totara | soilborne plant pathogen | Assembly | Asf | ||||
| Phytophthora agathidicida | Assembly | Asf | ||||||
| Phytophthora alni | Assembly | Asf | ||||||
| Phytophthora cambivora | Assembly | Asf | ||||||
| Phytophthora cryptogea | Assembly | Asf | ||||||
| Phytophthora nicotianae | Assembly | Asf | Asf | |||||
| Phytophthora parasitica | RefSeq | Asf | Asf | |||||
| Pythium irregulare | Assembly | Asf | ||||||
| Pythium oligadrum | Assembly | Asf | ||||||
| Pythium ultimum | Assembly | Asf | Asf | |||||
| Stramenopiles (Phaeophyceae) | Cladosiphon okamuranus | sea | Assembly | Pha | Pha | Pha | Pha | Pha |
| Ectocarpus siliculosus | RefSeq | Pha | Pha | Pha | Pha | Pha | ||
| Saccharina japonica | RefSeq | Pha | ||||||
| Viridiplantae (Chlorophyta) | Asterochloris glomerata | lichen photobiont | Assembly | Phy | Phy | Phy | Phy | |
| Chlamydomonas applanata | terrestrial | Assembly | Mi | |||||
| Chlamydomonas asymmetrica | freshwater | Assembly | Mi | Mi | Mi | Mi + Phy | Mi | |
| Chlamydomonas sphaeroides | freshwater | Assembly | Mi | Mi | Mi | Mi + Phy | Mi + √ | |
| Chlorella vulgaris | freshwater | Assembly | √ | |||||
| Coccomyxa sp. LA000219 | unknown | Assembly | Mi | Mi | Mi | Mi | Mi | |
| Cymbomonas tetramitiformis | sea | Assembly | Phy | Phy | Phy | Phy | Phy | |
| Haematococcus pluvialis | freshwater | Assembly | Mi | Mi | Mi | Mi + Phy | Mi | |
| Viridiplantae (Streptophyta) | Klebsormidium flaccidum | terrestrial | RefSeq | Phy | Phy | Phy | √ | Phy |
| Viridiplantae (Streptophyta) | Physcomitrella patens | terrestrial | RefSeq | Pitho | Pitho | |||
| Transcriptomic datasets | ||||||||
| Cryptophyta (Cryptomonadales) | Hemiselmis andersenii | sea | MMETSP | √ | ||||
| Cryptophyta (Pyrenomonadales) | Hanusia phi | sea | MMETSP | √ | ||||
| Haptophyceae (Coccolithales) | Pleurochrysis carterae | sea | MMETSP | √ | √ | √ | ||
| Haptophyceae (Isochrysidales) | Chrysochromulina polylepis | sea | MMETSP | √ | ||||
| Isochrysis galbana | sea | MMETSP | √ | |||||
| Haptophyceae (Phaeocystales) | Phaeocystis antarctica | sea | MMETSP | √ | ||||
| Haptophyceae (Prymnesiales) | Emiliania huxleyi | sea | MMETSP | Coc | Coc | Coc | ||
| Rhizaria (Cercozoa) | Lotharella globosa | sea | MMETSP | Phy | ||||
| Stramenopiles (Labyrinthulomycetes) | Aurantiochytrium limacinum | sea | MMETSP | Pha | ||||
| Schizochytrium aggregatum | sea | MMETSP | √ | √ | ||||
| Thraustochytrium sp. | sea | MMETSP | √ | √ | ||||
| Undescribed Strain | CCMP2135 | sea | MMETSP | √ | ||||
| Undescribed Strain | CCMP2436 | sea | MMETSP | √ | ||||
| Viridiplantae (Chlorophyta) | Carteria crucifera | freshwater | 1KP | Mi | Mi | |||
| Cylindrocapsa geminella | freshwater | 1KP | Mi | |||||
| Viridiplantae (Streptophyta) | Entransia fimbriat | freshwater | 1KP | Phy | ||||
| Interfilum paradoxum | terrestrial | 1KP | Phy | |||||
| Klebsormidium subtile | terrestrial | 1KP | Phy | |||||
* putative phylogenetic grouping of the NCLDV core protein homologs based on the phylogenetic trees presented in Figure 1 and Figure S1–S4: √ = unknown clade, Phy = Phycodnaviridae, Mi = Mimiviridae, Pha = phaeoviruses, Coc = coccolothoviruses, Pitho = putative Pithoviridae, Asf = Asfarviridae and IrMa = Iridoviridae/Marseilleviridae cluster. Column names: DNAP, DNA polymerase; MCP, major capsid protein; ATPase, DNA packaging ATPase; D5, D5 helicase; VLTF3, very late transcription factor 3.