12 research outputs found
Additional file 4 of FMO3 deficiency of duck leads to decreased lipid deposition and increased antibacterial activity
Additional file 4: Fig. S4. TMT10-plex proteomic data processing and protein interaction networks. A Characteristics of the detected peptides. The left panel represents the distribution of peptide length, and the right panel represents the distribution of missed cleavages. B Number of peptides in each sample. C Normalized data distribution before and after normalization. D Protein interaction network of differentially expressed proteins in eight modules
Additional file 7 of FMO3 deficiency of duck leads to decreased lipid deposition and increased antibacterial activity
Additional file 7: Fig. S7. Only a few proteins and transcripts have potential impacts on TMA production. A Ranked abundance plot of proteins and transcripts in duck livers. The top 10 most abundant proteins accounted for 12.7% of the total proteins, and the top 10 most abundant transcripts covered 33.8% of all transcripts in this tissue. B Changes in protein and transcript abundances. The upper-right panel shows the proportion of significantly altered proteins and transcripts
Additional file 10 of FMO3 deficiency of duck leads to decreased lipid deposition and increased antibacterial activity
Additional file 10: Table S3. Gene Ontology overrepresentation enrichment of differentially expressed proteins
Additional file 8 of FMO3 deficiency of duck leads to decreased lipid deposition and increased antibacterial activity
Additional file 8: Table S1. FMO3 mRNA expression in the CL and TH groups
Additional file 11 of FMO3 deficiency of duck leads to decreased lipid deposition and increased antibacterial activity
Additional file 11: Table S4. Taxa associated with TMA metabolism using the Mann-Whitney U-test
Additional file 3 of FMO3 deficiency of duck leads to decreased lipid deposition and increased antibacterial activity
Additional file 3: Fig. S3. GWAS analysis based on variations at the exon level showed that SNPs located in the exon region of FMO3 were not associated with TMA production. The top panel shows the Manhattan plot of the GWAS analysis, and the bottom panel shows the FMO3 gene region
Additional file 2 of FMO3 deficiency of duck leads to decreased lipid deposition and increased antibacterial activity
Additional file 2: Fig. S2. Differentially expressed transcripts were not enriched in any molecular function annotations. A MA plot of the quantified transcripts, and Venn diagram displaying differentially expressed transcripts. B Heatmap of hierarchical clustering based on the differentially expressed transcripts. C Gene ontology enrichment categories of the differentially expressed transcripts
Additional file 5 of FMO3 deficiency of duck leads to decreased lipid deposition and increased antibacterial activity
Additional file 5: Fig. S5. Bacteria in the duck cecum exhibited similar patterns in the CL and TH groups. A Rarefaction curve of the number of observed operational taxonomic units (OTUs) from 16S rRNA sequence data. B Histogram showing the distribution of the phyla. C Principal coordinates analysis (PCoA) with phylogeny-based (UniFrac) weighted distances of bacterial communities present in the duck cecum
Additional file 6 of FMO3 deficiency of duck leads to decreased lipid deposition and increased antibacterial activity
Additional file 6: Fig. S6. Characteristics of Akkermansia and Mucispirillum, and their relationships with other microbiota. A Spearman correlation of adjusted relative abundance for bacteria between the CL and TH groups, adjusted relative abundance = ln(abundance+Δ), Δ = 10− 7. B Cumulative abundance distribution of cecal bacteria. C Co-occurrence networks associated with Akkermansia and Mucispirillum (ρ > 0.4, P < 0.05). D Principal coordinates analysis (PCoA) using a distance matrix of enterotypes (Bacteroides and Desulfovibrio). E Characteristics of Akkermansia, Mucispirillum, and egg TMA contents in different enterotypes
Additional file 9 of FMO3 deficiency of duck leads to decreased lipid deposition and increased antibacterial activity
Additional file 9: Table S2. Differently expressed protein applying TMT10plex