Microbiota-tissue interaction in the skin healing of ulcered Sparus aurata after dietary administration of the probiotic SpPdp11

Additional file 1: Fig. S1 Rarefaction curves of microbiota skin samples

Additional file 2: Fig. S2 Relative abundance (%) of bacteria at the phylum in the skin mucus microbiota of fish feed with control diet without (C) and with wound (CW); fish feed with probiotic diet without (P) and with wound (PW)

Additional file 3: Fig. S3 Relative abundance (%) of bacteria at class in the skin mucus microbiota of fish feed with control diet without (C) and with wound (CW); fish feed with probiotic diet without (P) and with wound (PW). c__ non taxonomy classify OTUs at this categorise

Additional file 4: Fig. S4 Relative abundance (%) of bacteria at genera level in the skin mucus microbiota of fish feed with control diet without (C) and with wound (CW); fish feed with probiotic diet without (P) and with wound (PW).  g__ non taxonomy classify OTUs at this categorise

Additional file 5: Table S1 DESeq2 results in P vs PW comparison at OTU level, all the taxonomy categories were showed

Additional file 6: Table S2 RNA-seq reads summary. 1-3 biological replicate of fish feed with control diet without (C) and with wound (CW). Fish feed with probiotic diet without (P) and with wound (PW). % Respect to total reads in each case

Additional file 7: Fig. S5 Volcano plots of differentially expressed genes (DEGs) between groups, expression data plotted with correct p value cutoff FDR < 0.05 and log2 fold change absolute value >= 1.3. Fish feed with control diet without (C) and with wound (CW). Fish feed with probiotic diet without (P) and with wound (PW).

Additional file 8: Fig. S6 Functional enrichment network of the KEGG terms from the DEGs obtained in the comparison of PW vs CW. The brown nodes indicate the KEGG categories, red and blue nodes show the repression overexpression and repression genes in the skin of the ulcerated probiotic group.

Additional file 9: Fig. S7. Functional enrichment network of the Reactome categories from the DEGs obtained in the comparison of PW vs CW. The brown nodes indicate the Reactome categories, red and blue nodes show the repression overexpression and repression genes in the skin of the ulcerated probiotic group. Histogram shows that the categories were significantly enriched (p adjust > 0.05)

Additional file 10: Table S3 Correlations of CW-PW DEGs with the genera of skin microbiota in the same tissue.