Table 1.
Summary of topologies and node supports obtained with the Hes superfamily complete dataset analyses
| Node names | Node descriptions |
Complete dataset |
Comments |
||||
|---|---|---|---|---|---|---|---|
| ML - aLRT | ML - bootstrap | Bayes - PP | ML - aLRT | ML - bootstrap | Bayes - PP | ||
|
A |
Hes + Dec + Hey + Stich + Helt |
0,99 |
86 |
1 |
9 sequences are not included in any family |
9 sequences are not included in any family |
9 sequences are not included in any family |
|
B |
Hes |
0,98 |
22 |
0,91 |
|
|
|
|
C |
Hey |
0,92 |
45 |
0,95 |
|
|
|
|
D |
Helt |
0,15 |
20 |
0,78 |
|
|
Oca_10158 is not included in Helt |
|
D' |
Helt subgroup |
0,9 |
30 |
0,78 |
Oca_10158 is excluded |
Oca_10158 is excluded |
|
|
E |
Stich |
1 |
92 |
0,94 |
|
|
|
|
F |
DEC |
0,92 |
100 |
0,86 |
|
|
|
|
G |
E(Spl) |
0,73 |
19 |
0,96 |
15 sequences of ecdysozoans |
15 sequences of ecdysozoans |
15 sequences of ecdysozoans |
|
H |
Cnidarian Hes group 1 |
0,9 |
0 |
0,57 |
13 sequences + 3 sequences of deuterostomian |
13 sequences + 3 sequences of deuterostomian |
6 sequences only |
|
H' |
Cnidarian Hes subgroup of group 1 |
0,92 |
86 |
0,57 |
8 sequences |
8 sequences |
6 sequences only |
|
I |
Lophotrochozoan Hes group 1 |
0,44 |
2 |
_ |
4 sequences + Spu_06813 |
4 sequences + Spu_06813 |
Not found |
|
J |
Lophotrochozoan Hes group 2 |
0,6 |
3 |
0,61 |
5 sequences |
5 sequences |
5 sequences + Spu_15712 |
|
K |
Ecdysozoan Hes group 1 |
0,84 |
0 |
_ |
17 sequences including Dme_Hairy, side and dp, Cel_Lin-22 + 2 lophotrochozoan sequences |
17 sequences including Dme_Hairy, side and dpn Cel_Lin-22 + 2 lophotrochozoan sequences |
Not found |
|
K' |
Ecdysozoan Hes subgroup of group 1 |
0,92 |
0 |
_ |
8 sequences including Dme_Hairy and dpn |
8 sequences including Dme_Hairy and dpn |
Not found |
|
L |
Deuterostomian Hes group 1 |
0,8 |
5 |
_ |
14 sequences |
14 sequences |
Not found |
|
M |
Hes subgroup |
0,84 |
0 |
_ |
65 sequences including Lophotrochozoan Hes groups1 and 2, Ecdysozoan Hes group 1, |
65 sequences including Lophotrochozoan Hes groups1 and 2, Ecdysozoan Hes group 1, |
Not found |
| |
|
|
|
|
Cnidarian Hes group 1 and Deuterostomian Hes group 1 |
Cnidarian Hes group 1 and Deuterostomian Hes group 1 |
|
|
N |
Lophotrochozoan Hes group 3 |
0,71 |
1 |
1 |
10 sequences + 1 sequence of Nematostella |
10 sequences + 1 sequence of Nematostella |
6 sequences only |
|
O |
Cnidarian Hes group 2 |
0,81 |
18 |
_ |
5 sequences + 1 sequence of Platynereis |
5 sequences + 1 sequence of Platynereis |
Not found |
|
P |
Sponges + deuterostomes group 1 |
0,99 |
71 |
1 |
4 sequences (2 sponges + 2 deuterostomes) |
4 sequences (2 sponges + 2 deuterostomes) |
4 sequences (2 sponges + 2 deuterostomes) |
|
Q |
Sponges + deuterostomes group 2 |
0,96 |
89 |
1 |
5 sequences (2 sponges + 3 deuterostomes) |
5 sequences (2 sponges + 3 deuterostomes) |
5 sequences (2 sponges + 3 deuterostomes) |
| R | Hes subgroup 2 | 0,87 | 0 | _ | 70 sequences including E(spl), Lophotrochozoan Hes group 3 and Cnidarian Hes group 2 | 70 sequences including E(spl), Lophotrochozoan Hes group 3 and Cnidarian Hes group 2 | Not found |
Hes/Hey-related genes complete dataset was analyzed both with maximum likelihood (ML) and Bayesian algorithms. Node supports were tested by approximate likelihood ratio test (aLRT) (0 to 1) and bootstraps (0 to 100) for ML, and with posterior probabilities (PP, 0 to 1) for Bayes; results were provided in this table. Nodes names and descriptions correspond to the nodes of the Figure 2. Comments on clade for all analyses are provided, when relevant.