title: Human gut microbiome response to FOS and PDX in a cross-over study
design: Fecal swabs were removed from collection device quickly and cut into Qiagens DNeasy PowerSoil extraction plates. Extraction plates remained on dry ice until all fecal swabs were transferred. Plates were stored at -80C until analysis. Extraction plates were shipped on dry ice to CoreBiome, Inc for downstream extraction and library preparation. Extracts were quantified using the Quant-iT PicoGreen dsDNA assay (Thermo Fisher). Libraries were prepared using the NexteraXT kit and a HiSeq 1 x 150-cycle v3 kit (Illumina) was used to sequence samples.