Supplementary data for: Convergent reductive evolution of cyanobacteria in symbiosis with Dinophysiales dinoflagellates

<p>Supplementary data for phylogenomic analysis in "<strong>Convergent reductive evolution of cyanobacteria in symbiosis with Dinophysiales dinoflagellates</strong>" by Nakayama, T., Nomura, M., Yabuki, A., Shiba, K., Inaba, K., &amp; Inagaki, Y. (<a href="https://www.nature.com/articles/s41598-024-63502-0">https://www.nature.com/articles/s41598-024-63502-0</a>;&nbsp;<a href="https://doi.org/10.1101/2024.01.11.574452">https://doi.org/10.1101/2024.01.11.574452</a>).</p> <p>The text file <code>CregCyn_phylogenomic_tree.newick</code> contains a newick formatted phylogenomic tree shown in Figure 2 of the paper. Note that the tree is unrooted.<br>The compressed file <code>phylogenomic_analysis_dataset.tar.gz</code> contains the following directories and files.</p> <ul> <li><code>concatenated_dataset.fasta </code>: dataset used for the phylogenomic analysis, constructed by combining 143 protein alignments.</li> <li><code>single_protein_datasets</code>: directory containing each orthologous protein sequence from which the concatenated dataset was derived.<br>It also contains the following subdirectories. <ul> <li><code>original_sequences</code>: contains the multi-FASTA files of the original sequences for each orthologous protein.</li> <li><code>multiple_alignments</code>: contains multiple alignments for each orthologous protein.</li> <li><code>trimmed_alignments</code>: contains multiple alignments for each protein, with positions not suitable for analysis removed. These files are combined into <code>single_protein_dataset.fasta</code>.</li> </ul> </li> </ul>