Additional file 3: of A core phylogeny of Dictyostelia inferred from genomes representative of the eight major and minor taxonomic divisions of the group
Reema Singh
Christina Schilde
Pauline Schaap
10.6084/m9.figshare.c.3613886_D1.v1
https://springernature.figshare.com/articles/journal_contribution/Additional_file_3_of_A_core_phylogeny_of_Dictyostelia_inferred_from_genomes_representative_of_the_eight_major_and_minor_taxonomic_divisions_of_the_group/4371749
Phylogenies inferred from 47 individual proteins. Consensus alignments of orthologous sequences of 47 proteins retrieved from 14 amoebozoan genomes were determined using M-coffee, with eight alignment algorithms. Regions with poor consensus alignment or with long insertions in only few proteins were deleted. Phylogenies were inferred by Bayesian inference using a mixed amino-acid substitution models with rate variation between sites estimated by a gamma distribution with a proportion of invariable sites. Analysis were run for one million generations. Trees were rooted at midpoint using Figtree ( http://tree.bio.ed.ac.uk/software/figtree/ ), with posterior probabilities shown at the nodes. Panel A: proteins a-h; Panel B: proteins m-x. The consensus phylogeny of all 47 concatenated proteins (see also Fig. 2) is shown top left in Panel A. (PDF 156 kb)
2016-11-17 05:00:00
Multi-locus phylogeny
Dictyostelia
Phylogenomics
Evolution of soma
Evolution of multicellularity
Taxonomy