Additional file 2: Figure S2. of The impact of sequence database choice on metaproteomic results in gut microbiota studies

The influence of taxonomic filter level on the 16S-based (16S, top) and proteomic iterative (PI, bottom) databases. Venn diagrams indicate overlap among non-redundant peptide identifications obtained using UniProt sequences belonging to all families (F), genera (G), or species (S) detected after 16S rDNA gene sequencing and QIIME taxonomic assignment (16S; taxon abundance threshold >0.1 %), or a preliminary search against UniProt Bacteria and peptide taxonomic assignment using Unipept (PI; taxon abundance threshold >0.5 %). Peptide identifications were obtained at 5 % FDR, using three different bioinformatic platforms (left, MetaProteomeAnalyzer; middle, MaxQuant; right, Proteome Discoverer) with the corresponding (and above indicated) search engines and peptide validation tools. (TIF 1580 KB)