Table 3 Analysis of potentially informative gene structures in korarchaeota and thaumarchaeota.
Sequence Property | Initially reported to support | In Korarchaeota | In Thaumarchaea | Now Supports | Notes |
|---|---|---|---|---|---|
Split RpoA | Holophyly | X | X | Holophyly or paraphyly (Thaumarchaeota or Korarchaeota) | |
7 AA Insert in EF-1 | Paraphyly (Crenarchaea) | 2 aa insert shared with thermoplasma | X | Paraphyly, but weakly | Must be reversion in Euryarchaea |
6 AA insert in RadA | Paraphyly (Euryarchaea) | ? | ? | ? | There is probably an artifact in the original alignment. |
1 AA insert in SecY | Paraphyly (Crenarchaea) | absent | X | Paraphyly (Crenarchaea or Thaumarchaeota) | Single Glycine, but anchors are really nicely conserved |
1 AA insert in proAS | Holophyly | X | absent | Probably holophyly, maybe paraphyly (Thaumarchaeota) | BLAST reveals Thaumarchaeota may have HGT from Firmicutes. |
7 AA insert in GatD | Holophyly | X | X | Inconclusive | Completely conserved, but its not clear the Eukaryotes inherited this from Archaea |
2 AA insert in PBG | Holophyly | Gene is absent | Gene is absent | Inconclusive (bacterial origin) | This protein is present in bacteria, so the Thaumarchaeota and Korarchaeota probably lost it |
2 AA insert in ribosomal S12 | Holophyly | X | X | Inconclusive | It is conserved across the Eukaryotes and Archaea |