Supplementary dataset for Quinones in Pseudomonadota, Dataset S4: Phylogenies and alignments
<h2>Reference</h2><p dir="ltr">This is part of the Supplementary material of the study "A dynamic quinone repertoire accompanied the diversification of energy metabolism in Pseudomonadota", submitted to <i>The ISME Journal</i>.</p><p dir=&qu...
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2024
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| Summary: | <h2>Reference</h2><p dir="ltr">This is part of the Supplementary material of the study "A dynamic quinone repertoire accompanied the diversification of energy metabolism in Pseudomonadota", submitted to <i>The ISME Journal</i>.</p><p dir="ltr">Authors' list: Sophie-Carole Chobert, Morgane Roger-Margueritat, Laura Flandrin, Safa Berraies, Christopher T. Lefèvre, Ludovic Pelosi, Ivan Junier, Nelle Varoquaux, Fabien Pierrel, Sophie S. Abby</p><h2>Description</h2><p dir="ltr">This folder contains the alignments (original and filtered) and the phylogenetic trees.</p><p dir="ltr">The folder architecture is as follow:</p><pre><pre>.<br>├── MenA<br>│ ├── MenA.faa-aln<br>│ ├── MenA_filtered.faa<br>│ └── MenA_filtered.treefile<br>├── MenB<br>│ ├── MenB.faa-aln<br>│ └── ...<br>├── ...<br>├── species_tree<br>│ ├── gamma_tree_aln<br>│ │ ├── COG0012.faa-aln<br>│ │ ├── COG0016.faa-aln<br>│ │ └── ...<br>└── UbiV<br> ├── UbiV.faa-aln<br> ├── UbiV_filered.treefile<br> ├── UbiV_filtered.faa<br> └── UbiV_rooted<br> ├── UbiV_U32_outgroup.faa-aln<br> ├── UbiV_U32_outgroup_filtered.faa<br> └── UbiV_U32_outgroup_filtered.treefile<br></pre></pre><p dir="ltr">Within each sub-folder are presented the filtered (filtered.faa) and unfiltered alignments (.faa-aln), as well as the phylogenetic trees obtained from the filtered alignments.</p><p dir="ltr">The different files and how they were obtained are described in the Materials & Methods section of the article.</p> |
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