Table 1 The overview of current phylogenetic analyses (PCG – nuclear protein coding genes; AA – amino acid dataset; nucl. – nucleotide dataset; ML – maximum likelihood; BI – Bayesian Inference; iQ – iQ-TREE; StaphF, ScarF, ElatF – the series Staphyliniformia, Scarabaeiformia, Elateriformia; core Polyphaga – all polyphagan series except Scirtiformia and Derodontidae)
From: Genome sequencing of Rhinorhipus Lawrence exposes an early branch of the Coleoptera
Dataset | # of taxa | # of genes | Figs. | Analyses | Topology |
|---|---|---|---|---|---|
rRNA, mtDNA | 563 | 4 | 2A, S1 | ML (RaxML) | Rhinorhipus(core Polyphaga) |
mitogenomes | 82 | 15 | 2B, S2 | ML (RaxML) | (Rhin. + Nosod.)(StaphF(ScarF(ElatF))) |
mitogenomes | 82 | 15 | S9 | BI (PhyloBayes) | ((Rhin. + Nosod.)StaphF)(ScarF(ElatF)) |
rRNA+PCG nucl. | 139 | 8 | 2C, S3 | ML (iQ) | (Rhinorhipus + Nosodendron)(ElatF) |
rRNA+PCG nucl. | 139 | 8 | S4 | BI (PhyloBayes) | Rhinorhipus(core Polyphaga) |
PCG AA | 372 | 66 | 2D, S5 | ML (RAxML) | Rhinorhipus(core Polyphaga) |
PCG AA | 372 | 66 | S6 | ML (iQ) | Rhinorhipus(core Polyphaga) |
PCG nucl. | 372 | 66 | S7 | ML (RAxML) | Rhinorhipus + Nosodendron(ElatF) |
PCG AA (#1) | 24 | 4220 | – | ML (iQ, no filtering) | Rhinorhipus(Elateriformia) |
PCG nucl. (#2) | 24 | 4220 | 3C | ML (iQ,1st + 2nd) | Rhinorhipus(Elateriformia) |
PCG AA (#3) | 24 | 4220 | 3D | ML (iQ, Aliscore) | Rhinorhipus(Elateriformia) |
PCG AA (#4) | 24 | 943 | – | ML (iQ, Aliscore) | Rhinorhipus(Elateriformia) |