Fig. 1
From: Modulation of the human gut microbiota by dietary fibres occurs at the species level
Diagram showing the design of the fermentor experiments used in this study. Single substrates (inulin or apple pectin) were supplied at a concentration of 0.5 %. In each experiment, two vessels were run in parallel (F1 and F2), with the same faecal inoculum and substrate. Fermentor 1 was shifted in the sequence pH 5.5, 6.0, 6.4, 6.9 (upshift) and fermentor 2 in the sequence pH 6.9, 6.4, 6.0, 5.5 (downshift). Samples were collected daily for short chain fatty acid analysis and DNA extraction was performed at days 0, 3, 6, 9, and 12 for qPCR and Illumina MiSeq-based sequencing of 16S rRNA gene amplicons. For each substrate, separate experiments were performed using faecal inocula from three different healthy volunteers (D1, D2 and D3)