16S rRNA-Seq of mus musculus
Samples were prepared for 16S V3/V4 amplicon sequencing using the Zymo Quick-16S Plus NGS Library Prep Kit and unique dual indexes. Sequencing was performed on the Illumina NextSeq2000 platform using a 600 cycle flow cell kit to produce 2x300bp paired reads. 30-40% PhiX control (unindexed) was spiked into the library pool to support optimal base calling of low diversity libraries on patterned flow cells. Read demultiplexing, read trimming, and run analytics were performed using DRAGEN v3.10.12, an on-board analysis software on the NextSeq2000.