Replication Data for: Expressed protein profile of a Tectomicrobium and other microbial symbionts in the marine sponge Aplysina aerophoba as evidenced by metaproteomics

<p>Data files generated within the project described in the paper: “Expressed protein profile of a “<i>Candidatus</i> Entotheonella”-like bacterium and other microbial symbionts in the marine sponge <i>Aplysina aerophoba</I> as evidenced by metaproteomics”.<br/>
Data is organized in two zip archives <b.1_Raw_data.zip</b> and <b>2_Processed_data.zip</b>.</p>
<p><b>Contents of the archives</b></p>
<p><b>1_Raw_data.zip</b>:<br/>The directory <b>peaks_exports</b> contains the information related to the <i>de novo</i> sequencing of the peptides. There is one subdirectory for each sample (10 in total). Each sample subdirectory contains 5 files:</p>
<ul>
<li><b>DB search psm.csv</b>: Output of the database search including post-translational modifications (PTM)</li>
<li><b>de novo only peptides.csv</b>: Features of de novo peptides only</li>
<li><b>peptide.csv</b>: Features of peptides identified</li>
<li><b>protein-peptides.csv</b>: Features of peptides matching proteins in the database</li>
<li><b>proteins.csv</b>: Features of all identified proteins</li>
</ul>
<p><b>2_Processed_data.zip</b>:<br/>The archive contains two subfolders:<br/>
<b>1_Assemblies_databases</b>: Metagenomic assemblies (contigs > 1 Kbp) used as a database for matching sequenced peptides. There are two, one for the sponge <b>aply_sponge_1k_aa.faa</b>, and one for the seawater <b>sw_1k_aa.faa</b><br/>
<b>2_Protein_fastas</b>: Includes the actual input for the analyses presented, and similarly is divided into two subfolders: <b>Seawater_Mediterranean</b>, containing four files, one for each seawater sample analyzed; and <b>Sponge_Aplysina_aerophoba</b> which includes six files, one for each sponge sample analyzed.<br/>All files are named according to sample identifiers provided in the manuscript, namely:</p>
<ul>
<li><b>DB search psm.csv</b>: Output of the database search including post-translational modifications (PTM)</li>
<li><b>proteins_16B.fasta</b> (Sponge Aplysina aerophoba)</li>
<li><b>proteins_16C.fasta</b> (Sponge Aplysina aerophoba)</li>
<li><b>proteins_17.fasta</b> (Sponge Aplysina aerophoba)</li>
<li><b>proteins_19A.fasta</b> (Sponge Aplysina aerophoba)</li>
<li><b>proteins_19B.fasta</b> (Sponge Aplysina aerophoba)</li>
<li><b>proteins_25.fasta</b> (Sponge Aplysina aerophoba)</li>
<li><b>proteins_sw5.fasta</b> (Mediterranean seawater)</li>
<li><b>proteins_sw6.fasta</b> (Mediterranean seawater)</li>
<li><b>proteins_sw7.fasta</b> (Mediterranean seawater)</li>
<li><b>proteins_sw8.fasta</b> (Mediterranean seawater)</li>
</ul>