This repository contains supplemental materials from:
Tal Gordon, Arnav Kumar Upadhyay, Lucia Manni, Dorothee Huchon, Noa Shenkar. And then there were three…: Extreme regeneration ability of the solitary chordate Polycarpa mytiligera. Accepted. Front. Cell Dev. Biol. | doi: 10.3389/fcell.2021.652466
These datasets are based on data from Alié A, Hiebert LS, Simion P, et al. Convergent Acquisition of Nonembryonic Development in Styelid Ascidians. Mol Biol Evol. 2018;35(7):1728-1743. doi:10.1093/molbev/msy068.
Gordon_genes_raw.zip
This zipped folder contains the 3,341 initial single-gene alignments (fasta format) before any post-processing.
Gordon_genes_guidance.zip
This zipped folder contains the 3,341 initial single-gene alignments (fasta format) after Guidance trimming.
Gordon_all_genes_supermatrix.phy
Supermatrix based on 3,341 genes used in the study. Phylip format.
Gordon_reduced_supermatrix.phy
Supermatrix based on 3,341 genes used in the study. Phylip format. Matrix used to build the tree presented in Figure 6.
Gordon_all_genes_ML.tre
Phylogenetic tree reconstructed based on the all_genes_supermatrix under the LG+C60+F+G model of IQtree (version 1.6.12). Newick format.
Gordon_reduced_ML.tre
Phylogenetic tree presented in Figure 6 reconstructed based on the reduced_supermatrix under the LG+C60+F+G model of IQtree (version 1.6.12). Newick format.
Polycarpa_mytiligera_transcriptome_assembly_120.zip
Zipped transcriptome assembly of Polycarpa mytiligera. The transcriptome was assembled from Illumina reads using Trinity (v2.8.4). Transcripts shorter than 120 bp were deleted. Fasta format.