Dietary fiber modulates the window of susceptibility to Clostridioides difficile infection
DNA extracted from 200 mg of stool was quantified using the Quant-iTTM PicoGreen dsDNA assay kit (Thermo Fisher Scientific). Shotgun libraries were generated from 7.5 ng DNA using Illumina DNA Prep Library Prep kit and IDT for Illumina unique dual indexes at 1:4 scale reaction volume. Libraries were sequenced on an Illumina Novaseq 6000 v1.5 flow cell, producing 2x150 bp paired-end reads.