Illumina MiSeq paired end sequencing
DNA was extracted from fecal samples using the MagNA Pure LC Instrument and the MagNA Pure LC DNA Isolation Kit III (Roche). DNA libraries were prepared following the Illumina DNA Prep Reference Guide (1000000025416-10) using the Illumina DNA Prep Kit (reference 20060059). Input DNA was standardized to 0.2 ng/Âµl. During multiplexing, Nextera DNA CD Indexes (reference 20018708) were used. Library size was refined using Sample Purification Beads from the Prep Kit and confirmed with the Fragment Analyzer 48-Capillary Array and HS NGS Fragment Kit (1-6000bp) (Agilent, reference DNF-474-0500). Libraries were sequenced with the NextSeq 2x150bp paired-end reagent kit (NextSeq 500/550 High Output Kit v2.5, reference 20024908) on the MiSeq Sequencer, following the Illumina MiSeq reference guide.
Illumina DNA Prep Reference Guide 1000000025416-85