Additional file 1 of Comprehensive insights into the mechanism of keratin degradation and exploitation of keratinase to enhance the bioaccessibility of soybean protein
Creators: name: Zhou, Beiya
name: Guo, Yandong
name: Xue, Yaju
name: Ji, Xiuling
name: Huang, Yuhong
Publisher: name: figshare
Year: 2024
Subjects: subject: Biophysics
subject: Biochemistry
subject: Physical Sciences not elsewhere classified
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences

description: Additional file 1. Table S1. Primers used in this study. Table S2. Response-surface analysis of the conditions when Bacillus sp. 8A6 grew in feather medium. Table S3. Quality analysis of the raw RNA sequencing data when Bacillus sp. 8A6 grew in feather medium for 0, 8 and 20 h. Table S4. Quality analysis of the clean RNA sequencing data when Bacillus sp. 8A6 grew in feather medium for 0, 8 and 20 h. Table S5. Up-regulated keratinases, disulfide reductases for the group 0 h VS 8 h when Bacillus sp. 8A6 grew in feather medium. Table S6. Up-regulated keratinases, disulfide reductases for the group 8 h VS 20 h when Bacillus sp. 8A6 grew in feather medium. Figure S1. Four factors that affect protease activity when the Bacillus sp. 8A6 grew in feather medium. (A) Effects of different temperatures; (B) Effects of different pH; (C) Effects of different feather concentration; (D) Effects of inoculation amount (*p &lt; 0.05，**p &lt; 0.01, ***p &lt; 0.001, ****p &lt; 0.0001). Response surface 3D plots reveals the interaction of factors affecting protease activity, (E) pH and inoculation amount; (F) inoculation amount and feather concentration; (G) feather concentration and pH. Figure S2. The OD600 of Bacillus sp. 8A6 when grown in feathermedium at different time points. Figure S3. Four factors that affect protein concentration. (A) Effects of different temperatures; (B) Effects of different pH; (C) Effects of different feather concentration; (D) Effects of inoculation amount (*p &lt; 0.05，**p &lt; 0.01, ***p &lt; 0.001, ****p &lt; 0.0001). Figure S4. Pearson correlation coefficient correlation analysis (A) and principal component analysis (B) among the three RNA-seq samples when Bacillus sp. 8A6 grew in feather medium for 0, 8 and 20 h. Figure S5. Volcano plot of the differentially expressed genes for the groups 0 h VS 8 h (A) and 8 h VS 20 h (B) when Bacillus sp. 8A6 grew in feather medium. Up-regulated genes are shown as red dots and down-regulated genes are shown as blue dots. The significant difference means that the expression level of the genes are 2 times different and the qvalue (fdr, pad) ≤0.05. Figure S6. Hierarchical clusters of differentially expressed genes according to the log10(FPKM+1) value when Bacillus sp. 8A6 grew in feather medium for 0, 8 and 20 h. The up-regulated genes were indicated as red color and the down-regulated genes were indicated as blue color based on the color key. Six main clusters were enriched and highlighted by different colors next to the phylogenetic tree. Figure S7. Gene Ontology (GO) analysis of the molecular function, cellular component and biological process for the groups 0 h VS 8 h (A) and 8 h VS 20 h (B) according to the -log10(pvalue) when Bacillus sp. 8A6 grew in feather medium. The higher -log10(p-value) indicates the more significant for enrichment of the GO term. Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis of the pathways for the groups 0 h VS 8 h (C) and 8 h VS 20 h (D) according to the -log10(p-value) when Bacillus sp. 8A6 grew in feather medium. 30 significantly different pathways are shown according to the Q-value. Figure S8. Cluster of Orthologous Groups of proteins (COG) analysis of the gene function for the groups 0 h VS 8 h (A) and 8 h VS 20 h (B) according to the gene numbers when Bacillus sp. 8A6 grew in feather medium. The up-regulated genes were indicated as red color and the down-regulated genes were indicated as blue color. Supplemental peptide list 1. Short peptides of Bacillus sp. 8A6 keratinases. Supplemental peptide list 2. Short peptides of NY100. Supplemental peptide list 3. Short peptides of CK.