DOI: 10.5061/dryad.g2qp5
title: Data from: Illuminating the base of the annelid tree using transcriptomics

description: Annelida is one of three animal groups possessing segmentation and is
 central in considerations about the evolution of different character
 traits. It has even been proposed that the bilaterian ancestor resembled
 an annelid. However, a robust phylogeny of Annelida, especially with
 respect to the basal relationships, has been lacking. Our study based on
 transcriptomic data comprising 68,750 – 170,497 amino acid sites from 305
 – 622 proteins resolves annelid relationships, including Chaetopteridae,
 Amphinomidae, Sipuncula, Oweniidae, Magelonidae in the basal part of the
 tree. Myzostomida, which have been indicated to belong to the basal
 radiation as well, are now found deeply nested within Annelida as sister
 group to Errantia in most analyses. Based on our reconstruction of a
 robust annelid phylogeny, we show that the basal branching taxa include a
 huge variety of life-styles such as tube-dwelling and deposit-feeding,
 endobenthic and burrowing, tubicolous and filter-feeding, as well as
 errant and carnivorous forms. Ancestral character state reconstruction
 suggests that the ancestral annelid possessed a pair of either sensory or
 grooved palps, bicellular eyes, biramous parapodia bearing simple chaeta
 and lacked nuchal organs. Since the oldest fossil of Annelida is reported
 for Sipuncula (520 Mya), we infer that the early diversification of
 annelids took place at least in the Lower Cambrian.
description: Alignment_Dataset_72-2Alignment of the dataset comprising 72 taxa with MARE α=2 appliedDataset_72-2.fasAlignment_Dataset_77-1.5Alignment of the dataset comprising 77 taxa with MARE α=1.5 applied.Dataset_77-1.5.fasAlignment_Dataset_77-1Alignment of the dataset comprising 77 taxa with MARE α=1 applied.Dataset_77-1.fasAlignment_Dataset_77-2Alignment of the dataset comprising 77 taxa with MARE α=2 applied.Dataset_77-2.fasAlignment_Dataset_79-1.5Alignment of the dataset comprising 79 taxa with MARE α=1.5 applied.Dataset_79-1.5.fasAlignment_Dataset_79-1Alignment of the dataset comprising 79 taxa with MARE α=1 applied.Dataset_79-1.fasAlignment_Dataset_79-2Alignment of the dataset comprising 79 taxa with MARE α=2 applied.Dataset_79-2.fasSupplementary File S1_Amphinomida within ErrantiaPlot of psL of each constrained analysis in comparison to the best treeSupplementary File S2_Chaetopteridae and Magelona within SedentariaPlot of psL of each constrained analysis in comparison to the best treeSupplementary File S3_Chaetopteridae within SedentariaPlot of psL of each constrained analysis in comparison to the best treeSupplementary File S4_Magelona and Oweniidae within SedentariaPlot of psL of each constrained analysis in comparison to the best treeSupplementary File S5_Oweniidae and Chaetopteridae within SedentariaPlot of psL of each constrained analysis in comparison to the best treeSupplementary File S6_Magelona within SedentariaPlot of psL of each constrained analysis in comparison to the best treeSupplementary File S7_Oweniidae and Chaetopteridae within SedentariaPlot of psL of each constrained analysis in comparison to the best treeSupplementary File S8_Oweniidae within SedentariaPlot of psL of each constrained analysis in comparison to the best treeSupplementary File S9_Sipuncula outside AnnelidaPlot of psL of each constrained analysis in comparison to the best treeSupplementary Files S10_MorphologicalMatrix_LikelihoodMorphological matrix of the ancestral reconstruction using the likelihood criterion.Supplementary Files S11_MorphologicalMatrix_ParsimonyMorphological matrix of the ancestral reconstruction using the parsimony criterion.lophotrochozoa_hmmer3.tarCore-ortholog set used for orthology prediction with HaMStR. The set was generated using proteomes from seven primer taxa (Helobdella robusta, Capitella teleta, Lottia gigantea, Schistosoma mansoni, Daphnia pulex, Apis mellifera and Caenorhabditis elegans) and comprises 2,33 orthologous genes.