Table 1.
Assignation of Sequences from Both the Cultures and the Environment to the Different Defined Clades (fig. 1).
| Clade | #seq | %env | %env opisto | Environments |
|||
|---|---|---|---|---|---|---|---|
| M | SL | F | SB | ||||
| Acanthoeca | 48 | 79 | 6 | 94 | 6 | — | — |
| Stephanoeca | 17 | 71 | 2 | 100 | — | — | — |
| Diaphanoeca | 55 | 91 | 9 | 100 | — | — | — |
| MACHO 1 | 16 | 88 | 2 | 100 | — | — | — |
| Acanthocorbis | 71 | 90 | 11 | 100 | — | — | — |
| Monosiga | 35 | 71 | 4 | 100 | — | — | — |
| Langenoeca | 17 | 88 | 3 | 82 | 6 | 12 | — |
| FRESCHO 1 | 22 | 100 | 4 | — | 5 | 95 | — |
| Urceolata | 12 | 75 | 2 | 100 | — | — | — |
| Salpingoeca | 31 | 87 | 5 | — | 6 | 94 | — |
| Napiformis | 15 | 93 | 2 | — | — | 100 | — |
| FRESCHO2 | 5 | 100 | 1 | — | — | 100 | — |
| Pyxidium | 2 | 50 | NA | — | — | 100 | — |
| FRESCHO 4a | 18 | 100 | 3 | — | — | 100 | — |
| FRESCHO 3 | 33 | 100 | 6 | — | — | 100 | — |
| Clade L | 18 | 100 | 3 | 44 | — | 56 | —— |
| Other MACHOa | 9 | 100 | 2 | 100 | — | — | — |
| Other FRESCHOa | 5 | 100 | 1 | — | 20 | 80 | — |
| Choanoflagellatea | 429 | 88 | 66 | 66 | 2 | 32 | — |
| MAOP 2 | 15 | 100 | 3 | 100 | — | — | — |
| MAOP 1 | 9 | 100 | 2 | 100 | — | — | — |
| Corallochytrium | 29 | 97 | 5 | 100 | — | — | — |
| Marine Opisthokonts | 42 | 98 | 9 | 100 | — | — | — |
| Eccrinales | 15 | — | — | — | — | — | 100 |
| Ichthyophonus | 38 | — | — | — | — | — | 100 |
| Amoebidium | 7 | 57 | 1 | — | — | 57 | 43 |
| Psorospermium | 1 | — | — | — | — | — | 100 |
| FRESHIP 1 | 4 | 100 | 1 | — | — | 100 | — |
| Abeoforma | 48 | 33 | 3 | 31 | 2 | — | 67 |
| MAIP 1 | 34 | 100 | 6 | 94 | 3 | 3 | — |
| FRESHIP 2a | 3 | 100 | 1 | — | — | 100 | — |
| Anurofeca | 11 | 82 | 2 | — | — | 82 | 18 |
| Pseudoperkinsus | 82 | 82 | 11 | 82 | — | — | 18 |
| Dermocystidium | 29 | 7 | NA | — | 3 | 3 | 93 |
| Other MAIPa | 5 | 100 | 1 | 100 | — | — | — |
| Ichthyosporea | 277 | 52 | 24 | 43 | 1 | 8 | 48 |
| Capsaspora | 5 | — | — | — | — | — | 100 |
| Ministeria | 2 | — | — | 100 | — | — | — |
| Filasterea | 7 | — | — | 29 | — | 71 | |
| Simplex | 11 | 64 | 1 | — | 9 | 91 | — |
| Termophila | 8 | 38 | 1 | — | 13 | 88 | — |
| Fonticula | 2 | 50 | NA | 50 | — | 50 | — |
| FRESHOP | 2 | 100 | NA | — | — | 100 | — |
| Discicristoidea | 23 | 57 | 2 | 4 | 9 | 87 | — |
| Total | 789 | 75 | 100 | 58 | 2 | 23 | 17 |
Note.—#seq, total number of sequences retrieved from GenBank; %env, percentage of environmental sequences; %env opisto, percentage of environmental sequences within the unicellular opisthokonts; M, marine; SL, salt lake; F, freshwater; SB, symbiont. NA, not appicable. Sequences were assigned using two different maximum likelihood phylogenetic trees: one with only complete sequences (fig. 1) and one inferred from both complete and partial 18S rDNA sequences (442 sequences in total, 1,286 informative positions, shown in supplementary information S3, Supplementary Material online).
aClades that appear as an unnamed singletons in figure 1 or that are only recovered from partial sequences.