Additional file 1 of Self-reinoculation with fecal flora changes microbiota density and composition leading to an altered bile-acid profile in the mouse small intestine

Additional file 1: Figure S1. Tail cup design and experimental setup for preventing coprophagy. Figure S2. Mounting of functional tail cups onto mice. Figure S3. Body weight changes across all groups of mice in relation to food intake over the course of the study. Figure S4. Quantification of the culturable microbial load and microbiota profile along the entire GIT of mice fitted with functional tail cups (TC-F) and control mice (CTRL). Figure S5. Bile acid profiles in gallbladder bile and in lumenal contents along the entire GIT. Table S1. Primer oligonucleotide sequences used in the study. Table S2. Thermocycling parameters for the quantitative PCR (qPCR) assay for 16S rRNA gene DNA copy quantification. Table S3. Thermocycling parameters for the digital PCR (dPCR) assay for absolute 16S rRNA gene DNA copy quantification. Table S4. Thermocycling parameters for the 16S rRNA gene DNA amplicon barcoding PCR reaction for next generation sequencing (NGS). Table S5. Thermocycling parameters for the digital PCR (dPCR) assay for barcoded amplicon and Illumina NGS library quantification. Table S6. Reagents and chemical standards used in the bile acid metabolomics assay. Table S7. Bile acid concentrations in gallbladder bile and in lumenal contents along the entire GIT.附加文件1：图S1。用于防止食粪症的尾杯设计与实验装置。图S2：功能性尾杯在小鼠身上的安装方法。图S3：本研究周期内所有实验组小鼠的体重变化与同期食物摄入的关联情况。图S4：佩戴功能性尾杯（TC-F）小鼠与对照（CTRL）小鼠的整个胃肠道（gastrointestinal tract, GIT）可培养微生物载量及菌群组成定量分析结果。图S5：胆囊胆汁及整个胃肠道管腔内容物中的胆汁酸谱。表S1：本研究中使用的引物寡核苷酸序列。表S2：用于16S核糖体RNA基因（16S rRNA gene）DNA拷贝定量的定量PCR（qPCR）检测的热循环参数。表S3：用于绝对定量16S核糖体RNA基因DNA拷贝的数字PCR（dPCR）检测的热循环参数。表S4：用于下一代测序（next generation sequencing, NGS）的16S核糖体RNA基因DNA扩增子条形码PCR反应的热循环参数。表S5：用于条形码扩增子与Illumina下一代测序文库定量的数字PCR（dPCR）检测的热循环参数。表S6：胆汁酸代谢组学分析中使用的试剂与化学标准品。表S7：胆囊胆汁及整个胃肠道管腔内容物中的胆汁酸浓度。